Diff of the two buildlogs: -- --- b1/build.log 2024-06-05 19:25:19.556240329 +0000 +++ b2/build.log 2024-06-05 19:51:59.300238316 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Wed Jun 5 07:02:33 -12 2024 -I: pbuilder-time-stamp: 1717614153 +I: Current time: Wed Jul 9 15:48:25 +14 2025 +I: pbuilder-time-stamp: 1752025705 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz] I: copying local configuration @@ -45,51 +45,83 @@ dpkg-source: info: applying tune_lmdb_defaults I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/3227895/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/2125422/tmp/hooks/D01_modify_environment starting +debug: Running on infom02-amd64. +I: Changing host+domainname to test build reproducibility +I: Adding a custom variable just for the fun of it... +I: Changing /bin/sh to bash +'/bin/sh' -> '/bin/bash' +lrwxrwxrwx 1 root root 9 Jul 9 01:48 /bin/sh -> /bin/bash +I: Setting pbuilder2's login shell to /bin/bash +I: Setting pbuilder2's GECOS to second user,second room,second work-phone,second home-phone,second other +I: user script /srv/workspace/pbuilder/2125422/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/2125422/tmp/hooks/D02_print_environment starting I: set - BUILDDIR='/build/reproducible-path' - BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' - BUILDUSERNAME='pbuilder1' - BUILD_ARCH='amd64' - DEBIAN_FRONTEND='noninteractive' + BASH=/bin/sh + BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:globskipdots:hostcomplete:interactive_comments:patsub_replacement:progcomp:promptvars:sourcepath + BASH_ALIASES=() + BASH_ARGC=() + BASH_ARGV=() + BASH_CMDS=() + BASH_LINENO=([0]="12" [1]="0") + BASH_LOADABLES_PATH=/usr/local/lib/bash:/usr/lib/bash:/opt/local/lib/bash:/usr/pkg/lib/bash:/opt/pkg/lib/bash:. + BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") + BASH_VERSINFO=([0]="5" [1]="2" [2]="21" [3]="1" [4]="release" [5]="x86_64-pc-linux-gnu") + BASH_VERSION='5.2.21(1)-release' + BUILDDIR=/build/reproducible-path + BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' + BUILDUSERNAME=pbuilder2 + BUILD_ARCH=amd64 + DEBIAN_FRONTEND=noninteractive DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 ' - DISTRIBUTION='unstable' - HOME='/root' - HOST_ARCH='amd64' + DIRSTACK=() + DISTRIBUTION=unstable + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=x86_64 + HOST_ARCH=amd64 IFS=' ' - INVOCATION_ID='1584e7a1c5d24266a0782e608e1d3aff' - LANG='C' - LANGUAGE='en_US:en' - LC_ALL='C' - MAIL='/var/mail/root' - OPTIND='1' - PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games' - PBCURRENTCOMMANDLINEOPERATION='build' - PBUILDER_OPERATION='build' - PBUILDER_PKGDATADIR='/usr/share/pbuilder' - PBUILDER_PKGLIBDIR='/usr/lib/pbuilder' - PBUILDER_SYSCONFDIR='/etc' - PPID='3227895' - PS1='# ' - PS2='> ' + INVOCATION_ID=2bf8238b50c94e7dadc3760c77d97604 + LANG=C + LANGUAGE=et_EE:et + LC_ALL=C + MACHTYPE=x86_64-pc-linux-gnu + MAIL=/var/mail/root + OPTERR=1 + OPTIND=1 + OSTYPE=linux-gnu + PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path + PBCURRENTCOMMANDLINEOPERATION=build + PBUILDER_OPERATION=build + PBUILDER_PKGDATADIR=/usr/share/pbuilder + PBUILDER_PKGLIBDIR=/usr/lib/pbuilder + PBUILDER_SYSCONFDIR=/etc + PIPESTATUS=([0]="0") + POSIXLY_CORRECT=y + PPID=2125422 PS4='+ ' - PWD='/' - SHELL='/bin/bash' - SHLVL='2' - SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.EaN0sagt/pbuilderrc_yI6r --distribution unstable --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.EaN0sagt/b1 --logfile b1/build.log ncbi-blast+_2.12.0+ds-4.dsc' - SUDO_GID='109' - SUDO_UID='104' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - _='/usr/bin/systemd-run' + PWD=/ + SHELL=/bin/bash + SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix + SHLVL=3 + SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.EaN0sagt/pbuilderrc_aOyW --distribution unstable --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.EaN0sagt/b2 --logfile b2/build.log ncbi-blast+_2.12.0+ds-4.dsc' + SUDO_GID=109 + SUDO_UID=104 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' I: uname -a - Linux infom01-amd64 6.1.0-21-cloud-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.90-1 (2024-05-03) x86_64 GNU/Linux + Linux i-capture-the-hostname 6.7.12+bpo-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.7.12-1~bpo12+1 (2024-05-06) x86_64 GNU/Linux I: ls -l /bin - lrwxrwxrwx 1 root root 7 Jun 4 07:42 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/3227895/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 Jul 7 14:05 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/2125422/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -213,7 +245,7 @@ Get: 68 http://deb.debian.org/debian unstable/main amd64 libmbedtls-dev amd64 2.28.8-1 [702 kB] Get: 69 http://deb.debian.org/debian unstable/main amd64 time amd64 1.9-0.2 [50.8 kB] Get: 70 http://deb.debian.org/debian unstable/main amd64 zlib1g-dev amd64 1:1.3.dfsg+really1.3.1-1 [919 kB] -Fetched 45.5 MB in 1s (69.5 MB/s) +Fetched 45.5 MB in 1s (74.8 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libpython3.11-minimal:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19705 files and directories currently installed.) @@ -457,8 +489,8 @@ Setting up tzdata (2024a-4) ... Current default time zone: 'Etc/UTC' -Local time is now: Wed Jun 5 19:03:44 UTC 2024. -Universal Time is now: Wed Jun 5 19:03:44 UTC 2024. +Local time is now: Wed Jul 9 01:49:38 UTC 2025. +Universal Time is now: Wed Jul 9 01:49:38 UTC 2025. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up autotools-dev (20220109.1) ... @@ -520,7 +552,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../ncbi-blast+_2.12.0+ds-4_source.changes +I: user script /srv/workspace/pbuilder/2125422/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for unstable +I: user script /srv/workspace/pbuilder/2125422/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-genchanges -S > ../ncbi-blast+_2.12.0+ds-4_source.changes dpkg-buildpackage: info: source package ncbi-blast+ dpkg-buildpackage: info: source version 2.12.0+ds-4 dpkg-buildpackage: info: source distribution unstable @@ -552,78 +588,78 @@ done ) ; \ ) ; \ done -/bin/sh: 2: cd: can't cd to c++/src/objects/CMakeLists.txt -/bin/sh: 2: cd: can't cd to c++/src/objects/Makefile.in -/bin/sh: 2: cd: can't cd to c++/src/objects/Makefile.sources -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 2: cd: can't cd to c++/src/objects/nt_sources.cmd -/bin/sh: 2: cd: can't cd to c++/src/objects/nt_sources.sh -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found +/bin/sh: line 2: cd: c++/src/objects/CMakeLists.txt: Not a directory +/bin/sh: line 2: cd: c++/src/objects/Makefile.in: Not a directory +/bin/sh: line 2: cd: c++/src/objects/Makefile.sources: Not a directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 2: cd: c++/src/objects/nt_sources.cmd: Not a directory +/bin/sh: line 2: cd: c++/src/objects/nt_sources.sh: Not a directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory make[1]: [debian/rules:146: override_dh_clean] Error 127 (ignored) rm -rf c++/compilers/dll c++/config.log c++/Makefile rm -f c++/configure.lineno c++/src/objects/blastxml/blastxml.module @@ -1180,207 +1216,207 @@ configure: ...done configure: updating cache config.cache configure: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/config.status -config.status: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/seqmasks_io/Makefile -config.status: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services/Makefile -config.status: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services/unit_test/Makefile -config.status: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer/Makefile -config.status: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test/Makefile -config.status: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format/Makefile -config.status: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format/unit_test/Makefile -config.status: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/Makefile -config.status: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/demo/Makefile -config.status: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/Makefile -config.status: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/unit_test/Makefile +config.status: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/dustmasker/Makefile +config.status: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast/Makefile +config.status: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/segmasker/Makefile +config.status: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/winmasker/Makefile +config.status: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/Makefile +config.status: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb/Makefile +config.status: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/cgi/Makefile +config.status: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial/datatool/Makefile +config.status: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial/grpc_integration/Makefile +config.status: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial/Makefile +config.status: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/db/Makefile +config.status: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/db/sqlite/Makefile +config.status: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib/ncbicfg.c +config.status: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib/Makefile +config.status: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib/Makefile.precompile +config.status: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/alnmgr/Makefile config.status: 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/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/misc/third_party_static/Makefile +config.status: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/misc/third_party/Makefile +config.status: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/misc/Makefile +config.status: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/misc/jsonwrapp/test/Makefile +config.status: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/misc/jsonwrapp/Makefile +config.status: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect/Makefile +config.status: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect/services/Makefile +config.status: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile +config.status: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/html/Makefile config.status: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/./Makefile config.status: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc/common/ncbi_build_ver.h config.status: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/common/ncbi_revision.h @@ -5299,995 +5335,1022 @@ cd corelib/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources cd util/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources cd serial/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. cd serial/datatool/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. cd algo/blast/composition_adjustment/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources cd util/tables/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. cd connect/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources cd algo/blast/core/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial/datatool' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. cd util/sequtil/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/composition_adjustment' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/tables' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial' make[4]: warning: -j12 forced in submake: resetting jobserver mode. cd objtools/blast/services/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util' make[4]: warning: -j12 forced in submake: resetting jobserver mode. cd objmgr/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial/datatool' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/tables' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/composition_adjustment' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/core' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/sequtil' make[4]: warning: -j12 forced in submake: resetting jobserver mode. +cd objtools/blast/seqdb_reader/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/core' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader' make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[4]: Nothing to be done for 'sources'. make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial/datatool' -cd objtools/blast/seqdb_reader/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +cd objtools/logging/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util' -cd objtools/logging/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/composition_adjustment' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/logging' make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/composition_adjustment' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/core' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/sequtil' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/tables' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/sequtil' -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/logging' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/sequtil' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/core' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/composition_adjustment' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/core' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/tables' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/sequtil' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/composition_adjustment' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/tables' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/sequtil' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/core' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/composition_adjustment' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/core' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/core' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/tables' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/tables' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/core' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/sequtil' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' -/usr/bin/make[4] (Makefile.util.lib): Nothing to be done for `export-headers'. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/core' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make[4] (Makefile.blast.lib): Nothing to be done for `export-headers'. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr' -cd objtools/readers/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/tables' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/sequtil' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make[4] (Makefile.serial.lib): Nothing to be done for `export-headers'. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/core' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/logging' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr' +/usr/bin/make[4] (Makefile.util.lib): Nothing to be done for `export-headers'. +/usr/bin/make[4] (Makefile.serial.lib): Nothing to be done for `export-headers'. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/logging' +cd objtools/readers/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources /usr/bin/make[4] (Makefile.composition_adjustment.lib): Nothing to be done for `export-headers'. -/usr/bin/make[4] (Makefile.sequtil.lib): Nothing to be done for `export-headers'. -cd objmgr/util/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/composition_adjustment' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/sequtil' -/usr/bin/make[4] (Makefile.tables.lib): Nothing to be done for `export-headers'. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/tables' +cd objmgr/util/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/logging' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +/usr/bin/make[4] (Makefile.blast_services.lib): Nothing to be done for `export-headers'. +/usr/bin/make[4] (Makefile.sequtil.lib): Nothing to be done for `export-headers'. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/logging' make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/readers' +/usr/bin/make[4] (Makefile.connssl.lib): Nothing to be done for `export-headers'. make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/sequtil' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial' make[5]: warning: -j12 forced in submake: resetting jobserver mode. cd objtools/seqmasks_io/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -/usr/bin/make[4] (Makefile.connssl.lib): Nothing to be done for `export-headers'. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/logging' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/util' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/logging' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader' -/usr/bin/make[4] (Makefile.blast_services.lib): Nothing to be done for `export-headers'. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/logging' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. +/usr/bin/make[4] (Makefile.blast.lib): Nothing to be done for `export-headers'. cd util/profile/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +/usr/bin/make[4] (Makefile.tables.lib): Nothing to be done for `export-headers'. +/usr/bin/make[4] (Makefile.seqdb.lib): Nothing to be done for `export-headers'. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/core' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/tables' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial' +/usr/bin/make[4] (Makefile.objmgr.lib): Nothing to be done for `export-headers'. cd algo/blast/dbindex/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -cd algo/dustmask/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/profile' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/seqmasks_io' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/logging' -/usr/bin/make[4] (Makefile.objmgr.lib): Nothing to be done for `export-headers'. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial' +cd algo/dustmask/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr' cd algo/winmask/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/dustmask' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/profile' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' -make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' -make[6]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' +cd objtools/alnmgr/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/seqmasks_io' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/dustmask' make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/winmask' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/alnmgr' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/util' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/util' /usr/bin/make[4] (Makefile.logging.lib): Nothing to be done for `export-headers'. -make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' -make[6]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make[4] (Makefile.seqdb.lib): Nothing to be done for `export-headers'. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/readers' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/util' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/readers' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/util' make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/logging' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/profile' +cd algo/blast/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/readers' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/seqmasks_io' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -cd objtools/alnmgr/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -/usr/bin/make[4] (Makefile.cserial.lib): Nothing to be done for `export-headers'. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/profile' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/readers' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/api' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +/usr/bin/make[4] (Makefile.cserial.lib): Nothing to be done for `export-headers'. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/seqmasks_io' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/readers' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/profile' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/util' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/dustmask' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make[4] (Makefile.connect.lib): Nothing to be done for `export-headers'. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/profile' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/readers' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex' -cd algo/blast/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/dustmask' -/usr/bin/make[4] (Makefile.util.lib): Nothing to be done for `export-headers'. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/util' -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/alnmgr' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/alnmgr' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -cd objtools/blast/gene_info_reader/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/winmask' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/dustmask' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/profile' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/util' +/usr/bin/make[4] (Makefile.connect.lib): Nothing to be done for `export-headers'. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/winmask' -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/dustmask' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex' -/usr/bin/make[5] (Makefile.precompile): Nothing to be done for `all'. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/seqmasks_io' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/winmask' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/api' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make[4] (Makefile.utrtprof.lib): Nothing to be done for `export-headers'. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/profile' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/dustmask' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/alnmgr' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/profile' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/seqmasks_io' -cd util/compress/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/winmask' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' -/usr/bin/make[4] (Makefile.xobjread.lib): Nothing to be done for `export-headers'. -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/api' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make[4] (Makefile.xalgodustmask.lib): Nothing to be done for `export-headers'. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/seqmasks_io' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/util' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/dustmask' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/alnmgr' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/dustmask' -/usr/bin/make[4] (Makefile.xalgowinmask.lib): Nothing to be done for `export-headers'. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/seqmasks_io' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/winmask' -cd objtools/data_loaders/genbank/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/util' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/profile' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/dustmask' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/alnmgr' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/readers' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/winmask' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' +/usr/bin/make[4] (Makefile.xobjread.lib): Nothing to be done for `export-headers'. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/winmask' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/alnmgr' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' +/usr/bin/make[4] (Makefile.seqmasks_io.lib): Nothing to be done for `export-headers'. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/readers' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/seqmasks_io' +cd objtools/blast/gene_info_reader/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/readers' -/usr/bin/make[4] (Makefile.xalgoblastdbindex.lib): Nothing to be done for `export-headers'. +/usr/bin/make[4] (Makefile.xalgodustmask.lib): Nothing to be done for `export-headers'. +/usr/bin/make[4] (Makefile.utrtprof.lib): Nothing to be done for `export-headers'. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/dustmask' +/usr/bin/make[4] (Makefile.util.lib): Nothing to be done for `export-headers'. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/profile' +/usr/bin/make[4] (Makefile.alnmgr.lib): Nothing to be done for `export-headers'. +cd util/compress/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/util' +cd objtools/data_loaders/genbank/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/alnmgr' cd objtools/data_loaders/genbank/cache/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader' -/usr/bin/make[4] (Makefile.xxconnect.lib): Nothing to be done for `export-headers'. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/alnmgr' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex' -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' +/usr/bin/make[4] (Makefile.xalgoblastdbindex.lib): Nothing to be done for `export-headers'. +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -cd objtools/data_loaders/genbank/id1/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/readers' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. +cd objtools/data_loaders/genbank/id1/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +/usr/bin/make[4] (Makefile.xalgowinmask.lib): Nothing to be done for `export-headers'. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/winmask' +cd objtools/data_loaders/genbank/id2/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +cd cgi/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/readers' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/cache' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/api' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make[4] (Makefile.seqmasks_io.lib): Nothing to be done for `export-headers'. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/api' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/seqmasks_io' -cd objtools/data_loaders/genbank/id2/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id1' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/api' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id2' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' make[4]: warning: -j12 forced in submake: resetting jobserver mode. +/usr/bin/make[4] (Makefile.xxconnect.lib): Nothing to be done for `export-headers'. +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/cache' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/cgi' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +/usr/bin/make[4] (Makefile.xobjreadex.lib): Nothing to be done for `export-headers'. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make[4] (Makefile.alnmgr.lib): Nothing to be done for `export-headers'. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/alnmgr' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id2' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -cd cgi/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/cache' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id2' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/api' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/api' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/cache' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make[4] (Makefile.gene_info.lib): Nothing to be done for `export-headers'. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader' -cd html/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id2' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/cgi' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make[4] (Makefile.compress.lib): Nothing to be done for `export-headers'. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/api' -/usr/bin/make[4] (Makefile.xobjreadex.lib): Nothing to be done for `export-headers'. -cd objtools/align_format/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/cgi' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id1' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' -/usr/bin/make[4] (Makefile.xblast.lib): Nothing to be done for `export-headers'. -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/html' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make[4] (Makefile.corelib.lib): Nothing to be done for `export-headers'. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/api' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id2' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id1' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/cache' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -cd objtools/blast/blastdb_format/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/align_format' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id2' -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/cache' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/api' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/cgi' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id1' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id2' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/cache' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id2' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id1' +make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[6]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/cgi' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/cache' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id1' -/usr/bin/make[4] (Makefile.xconnect.lib): Nothing to be done for `export-headers'. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/api' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/cgi' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/cache' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id1' +/usr/bin/make[4] (Makefile.compress.lib): Nothing to be done for `export-headers'. /usr/bin/make[4] (Makefile.ncbi_xreader.lib): Nothing to be done for `export-headers'. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/cgi' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/cgi' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/align_format' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/api' +/usr/bin/make[4] (Makefile.ncbi_xreader_cache.lib): Nothing to be done for `export-headers'. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/cache' +cd html/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +/usr/bin/make[4] (Makefile.xconnect.lib): Nothing to be done for `export-headers'. +/usr/bin/make[4] (Makefile.ncbi_xreader_id2.lib): Nothing to be done for `export-headers'. +cd objtools/align_format/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id2' +/usr/bin/make[4] (Makefile.gene_info.lib): Nothing to be done for `export-headers'. +/usr/bin/make[4] (Makefile.xblast.lib): Nothing to be done for `export-headers'. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader' +/usr/bin/make[4] (Makefile.cgi.lib): Nothing to be done for `export-headers'. +cd objtools/blast/blastdb_format/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/html' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/align_format' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. +cd objtools/data_loaders/blastdb/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/html' /usr/bin/make[4] (Makefile.ncbi_xreader_id1.lib): Nothing to be done for `export-headers'. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/align_format' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/api' make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id1' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/html' -cd objtools/data_loaders/blastdb/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[5]: *** No rule to make target '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/LIBUV.enabled', needed by 'requirements'. Stop. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/align_format' -NOTE: skipping project "xxconnect2" due to unmet requirements -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format' -/usr/bin/make[4] (Makefile.ncbi_xreader_id2.lib): Nothing to be done for `export-headers'. +cd algo/blast/blastinput/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/html' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id2' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' -/usr/bin/make[4] (Makefile.cgi.lib): Nothing to be done for `export-headers'. -/usr/bin/make[4] (Makefile.ncbi_xreader_cache.lib): Nothing to be done for `export-headers'. +cd objtools/eutils/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -cd algo/blast/blastinput/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/html' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/cache' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial' -/usr/bin/make[4] (Makefile.align_format.lib): Nothing to be done for `export-headers'. -cd objtools/eutils/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/align_format' -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/blastinput' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/align_format' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -cd algo/blast/proteinkmer/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/cgi' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/blastinput' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/api' make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -cd connect/services/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -/usr/bin/make[4] (Makefile.test_mt.lib): Nothing to be done for `export-headers'. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/cgi' -/usr/bin/make[4] (Makefile.html.lib): Nothing to be done for `export-headers'. +make[5]: *** No rule to make target '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/LIBUV.enabled', needed by 'requirements'. Stop. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/html' -cd objtools/pubseq_gateway/client/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect/services' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make[4] (Makefile.ncbi_xloader_genbank.lib): Nothing to be done for `export-headers'. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/cgi' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' -/usr/bin/make[4] (Makefile.blastdb_format.lib): Nothing to be done for `export-headers'. -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/pubseq_gateway/client' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. +NOTE: skipping project "xxconnect2" due to unmet requirements make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/cgi' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/html' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format' -cd util/regexp/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/html' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/align_format' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/html' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/html' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/blastinput' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/api' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +/usr/bin/make[4] (Makefile.fcgi.lib): Nothing to be done for `export-headers'. +/usr/bin/make[4] (Makefile.html.lib): Nothing to be done for `export-headers'. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/html' +cd algo/blast/proteinkmer/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/blastinput' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/api' +make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/api' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/blastinput' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/align_format' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' +make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' +make[6]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/regexp' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/blastinput' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect/services' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/align_format' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make[4] (Makefile.fcgi.lib): Nothing to be done for `export-headers'. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/blastinput' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect/services' -/usr/bin/make[4] (Makefile.xthrserv.lib): Nothing to be done for `export-headers'. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/api' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/api' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect/services' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/align_format' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect/services' -/usr/bin/make[4] (Makefile.ncbi_xloader_blastdb.lib): Nothing to be done for `export-headers'. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/blastinput' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +/usr/bin/make[5] (Makefile.precompile): Nothing to be done for `all'. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +/usr/bin/make[4] (Makefile.align_format.lib): Nothing to be done for `export-headers'. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format' +/usr/bin/make[4] (Makefile.eutils.lib): Nothing to be done for `export-headers'. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/api' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/align_format' +cd connect/services/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +/usr/bin/make[4] (Makefile.ncbi_xloader_blastdb.lib): Nothing to be done for `export-headers'. +/usr/bin/make[4] (Makefile.proteinkmer.lib): Nothing to be done for `export-headers'. +/usr/bin/make[4] (Makefile.ncbi_xloader_genbank.lib): Nothing to be done for `export-headers'. +cd objtools/pubseq_gateway/client/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer' /usr/bin/make[4] (Makefile.blastinput.lib): Nothing to be done for `export-headers'. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/blastinput' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer' -/usr/bin/make[4] (Makefile.test_boost.lib): Nothing to be done for `export-headers'. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' +cd util/regexp/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/blastinput' cd util/xregexp/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/readers' -/usr/bin/make[4] (Makefile.xconnserv.lib): Nothing to be done for `export-headers'. -cd objtools/edit/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/regexp' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect/services' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/pubseq_gateway/client' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/regexp' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/xregexp' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/pubseq_gateway/client' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make[4] (Makefile.eutils.lib): Nothing to be done for `export-headers'. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/api' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' +/usr/bin/make[4] (Makefile.xthrserv.lib): Nothing to be done for `export-headers'. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/regexp' -cd objtools/cleanup/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/pubseq_gateway/client' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' +/usr/bin/make[4] (Makefile.blastdb_format.lib): Nothing to be done for `export-headers'. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format' +cd objtools/edit/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/pubseq_gateway/client' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/edit' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/xregexp' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +/usr/bin/make[4] (Makefile.ncbi_xloader_blastdb_rmt.lib): Nothing to be done for `export-headers'. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/regexp' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/xregexp' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/regexp' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/xregexp' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect/services' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/regexp' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/regexp' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/xregexp' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect/services' -/usr/bin/make[4] (Makefile.proteinkmer.lib): Nothing to be done for `export-headers'. -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/cleanup' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/regexp' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect/services' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/pubseq_gateway/client' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/edit' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -cd objtools/format/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect/services' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/edit' +/usr/bin/make[4] (Makefile.xregexp.lib): Nothing to be done for `export-headers'. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/edit' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/edit' +/usr/bin/make[4] (Makefile.regexp.lib): Nothing to be done for `export-headers'. +/usr/bin/make[4] (Makefile.xconnserv.lib): Nothing to be done for `export-headers'. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/xregexp' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/xregexp' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/xregexp' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect/services' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/xregexp' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect/services' -make[5]: *** No rule to make target '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/LIBUV.enabled', needed by 'requirements'. Stop. +/usr/bin/make[4] (Makefile.edit.lib): Nothing to be done for `export-headers'. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/edit' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' +cd objtools/cleanup/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/pubseq_gateway/client' -NOTE: skipping project "psg_client" due to unmet requirements -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/xregexp' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect/services' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +cd objtools/format/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect/services' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/pubseq_gateway/client' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make[4] (Makefile.ncbi_xloader_blastdb_rmt.lib): Nothing to be done for `export-headers'. +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/cleanup' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/format' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make[4] (Makefile.regexp.lib): Nothing to be done for `export-headers'. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/xregexp' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/edit' +/usr/bin/make[4] (Makefile.xregexp_template_tester.lib): Nothing to be done for `export-headers'. +make[5]: *** No rule to make target '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/LIBUV.enabled', needed by 'requirements'. Stop. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/pubseq_gateway/client' +NOTE: skipping project "psg_client" due to unmet requirements +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/pubseq_gateway/client' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/xregexp' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/edit' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/pubseq_gateway/client' -/usr/bin/make[4] (Makefile.ncbi_xcache_netcache.lib): Nothing to be done for `export-headers'. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/edit' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/pubseq_gateway/client' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' cd algo/blast/format/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/edit' -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/format' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/cleanup' +/usr/bin/make[4] (Makefile.ncbi_xcache_netcache.lib): Nothing to be done for `export-headers'. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect/services' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/cleanup' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/cleanup' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect/services' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/format' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/cleanup' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/cleanup' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/format' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/format' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect/services' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/cleanup' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect/services' -/usr/bin/make[4] (Makefile.edit.lib): Nothing to be done for `export-headers'. -/usr/bin/make[4] (Makefile.xregexp.lib): Nothing to be done for `export-headers'. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/cleanup' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/format' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/edit' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect/services' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/cleanup' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/format' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/xregexp' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect/services' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -cd algo/blast/blastinput/unit_test/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/xregexp' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect/services' +/usr/bin/make[4] (Makefile.corelib.lib): Nothing to be done for `export-headers'. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/format' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/format' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/xregexp' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/format' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. /usr/bin/make[4] (Makefile.cleanup.lib): Nothing to be done for `export-headers'. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/xregexp' make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/cleanup' /usr/bin/make[4] (Makefile.xformat.lib): Nothing to be done for `export-headers'. +cd algo/blast/blastinput/unit_test/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/format' -/usr/bin/make[4] (Makefile.ncbi_xblobstorage_netcache.lib): Nothing to be done for `export-headers'. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/format' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/format' cd algo/blast/dbindex/makeindex/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/blastinput/unit_test' make[4]: warning: -j12 forced in submake: resetting jobserver mode. +/usr/bin/make[4] (Makefile.ncbi_xblobstorage_netcache.lib): Nothing to be done for `export-headers'. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex/makeindex' make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' +make[4]: Nothing to be done for 'sources'. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/blastinput/unit_test' cd algo/blast/igblast/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/igblast' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -cd objtools/simple/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -/usr/bin/make[4] (Makefile.xregexp_template_tester.lib): Nothing to be done for `export-headers'. /usr/bin/make[4] (Makefile.xblastformat.lib): Nothing to be done for `export-headers'. -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/simple' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/format' +cd objtools/simple/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/igblast' make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[4]: Nothing to be done for 'sources'. make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex/makeindex' -make[4]: Nothing to be done for 'sources'. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/blastinput/unit_test' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/format' +/usr/bin/make[4] (Makefile.test_mt.lib): Nothing to be done for `export-headers'. cd algo/blast/proteinkmer/unit_test/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer/unit_test' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -cd algo/blast/unit_tests/blast_format/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/simple' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/blast_format' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer/unit_test' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/regexp' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/igblast' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/simple' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -cd algo/blast/unit_tests/blastdb/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources make[4]: Nothing to be done for 'sources'. make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer/unit_test' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/simple' +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/igblast' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/igblast' -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/blastdb' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -cd objtools/blast/seqdb_writer/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/simple' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/igblast' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Nothing to be done for 'sources'. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/blast_format' -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -cd algo/blast/unit_tests/seqdb_reader/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/simple' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/igblast' -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/seqdb_reader' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Nothing to be done for 'sources'. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/blastdb' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/simple' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/simple' +/usr/bin/make[4] (Makefile.test_boost.lib): Nothing to be done for `export-headers'. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -cd app/blast/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/cgi' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' /usr/bin/make[4] (Makefile.igblast.lib): Nothing to be done for `export-headers'. make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/igblast' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer' +cd algo/blast/unit_tests/blast_format/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -cd app/blastdb/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. /usr/bin/make[4] (Makefile.xobjsimple.lib): Nothing to be done for `export-headers'. make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/simple' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer' -cd app/dustmasker/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +cd algo/blast/unit_tests/blastdb/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/blast_format' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/blastdb' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +/usr/bin/make[4] (Makefile.blast_unit_test_util.lib): Nothing to be done for `export-headers'. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' -cd algo/segmask/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: Nothing to be done for 'sources'. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/blast_format' +cd objtools/blast/seqdb_writer/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: Nothing to be done for 'sources'. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/blastdb' +cd algo/blast/unit_tests/seqdb_reader/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer' make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/readers' +cd app/blast/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/seqdb_reader' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +/usr/bin/make[4] (Makefile.seqalign_util.lib): Nothing to be done for `export-headers'. +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' +cd app/blastdb/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +/usr/bin/make[4] (Makefile.writedb.lib): Nothing to be done for `export-headers'. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer' +cd app/dustmasker/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/dustmasker' make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: Nothing to be done for 'sources'. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/dustmasker' +cd algo/segmask/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/regexp' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. cd app/segmasker/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/segmask' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer' make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/segmasker' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Nothing to be done for 'sources'. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/dustmasker' cd app/winmasker/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/winmasker' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make[4] (Makefile.writedb.lib): Nothing to be done for `export-headers'. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer' make[4]: Nothing to be done for 'sources'. make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/segmasker' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/xregexp' cd objmgr/split/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -/usr/bin/make[4] (Makefile.blast_unit_test_util.lib): Nothing to be done for `export-headers'. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/segmask' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/split' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/winmasker' make[4]: warning: -j12 forced in submake: resetting jobserver mode. cd objtools/align_format/unit_test/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/segmask' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/xregexp' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/split' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/segmask' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/cgi' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/segmask' cd objtools/blast/blastdb_format/unit_test/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect/services' +cd objtools/blast/gene_info_reader/demo/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/align_format/unit_test' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/segmask' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/segmask' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -cd objtools/blast/gene_info_reader/demo/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect/services' make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format/unit_test' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/segmask' make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/demo' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -cd objtools/blast/gene_info_reader/unit_test/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/split' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[4]: Nothing to be done for 'sources'. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/split' make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/align_format/unit_test' -/usr/bin/make[4] (Makefile.xalgosegmask.lib): Nothing to be done for `export-headers'. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/segmask' +cd objtools/blast/gene_info_reader/unit_test/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[4]: Nothing to be done for 'sources'. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format/unit_test' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/split' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. cd objtools/blast/seqdb_reader/demo/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[6]: warning: -j12 forced in submake: resetting jobserver mode. make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/unit_test' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/winmasker' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Nothing to be done for 'sources'. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format/unit_test' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/split' +/usr/bin/make[4] (Makefile.xalgosegmask.lib): Nothing to be done for `export-headers'. +make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' make[4]: Nothing to be done for 'sources'. make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/demo' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/segmask' cd objtools/blast/seqdb_reader/test/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -/usr/bin/make[4] (Makefile.seqalign_util.lib): Nothing to be done for `export-headers'. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/split' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -cd objtools/blast/seqdb_writer/unit_test/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/demo' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/split' -cd objtools/blast/services/unit_test/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +cd objtools/blast/seqdb_writer/unit_test/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[6]: warning: -j12 forced in submake: resetting jobserver mode. +make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/test' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/split' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/split' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[4]: Nothing to be done for 'sources'. make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/unit_test' -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services/unit_test' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -cd corelib/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=corelib UNIX_PROJ="" sources= configurables=configurables.null +cd objtools/blast/services/unit_test/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/Makefile.legacy_blast builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast -w -j12 --jobserver-auth=9,10 all +/usr/bin/make[4] (Makefile.id2_split.lib): Nothing to be done for `export-headers'. make[4]: Nothing to be done for 'sources'. make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/demo' cd algo/blast/composition_adjustment/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=composition_adjustment UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/split' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services/unit_test' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +cd util/tables/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=tables UNIX_PROJ="" sources= configurables=configurables.null +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/winmasker' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[4]: Nothing to be done for 'sources'. make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/test' -/usr/bin/make[4] (Makefile.id2_split.lib): Nothing to be done for `export-headers'. -make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[6]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/tables' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/split' -cd util/tables/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=tables UNIX_PROJ="" sources= configurables=configurables.null -make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/composition_adjustment' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/winmasker' cd objtools/logging/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=logging UNIX_PROJ="" sources= configurables=configurables.null -make[6]: warning: -j12 forced in submake: resetting jobserver mode. -make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/winmasker' -make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[6]: warning: -j12 forced in submake: resetting jobserver mode. -make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/winmasker' -make[6]: warning: -j12 forced in submake: resetting jobserver mode. -make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/winmasker' make[4]: Nothing to be done for 'sources'. make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services/unit_test' -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/tables' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/logging' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. cd util/profile/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=utrtprof UNIX_PROJ="" sources= configurables=configurables.null -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/Makefile.legacy_blast builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast -w -j12 --jobserver-auth=9,10 all -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/Makefile.windowmasker_2.2.22_adapter builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker -w -j12 --jobserver-auth=9,10 all -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/profile' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/logging' make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/seqdb_reader' cd util/regexp/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=regexp UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/profile' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/regexp' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' -make[6]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' make[6]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/composition_adjustment' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/composition_adjustment' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/profile' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/logging' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/composition_adjustment' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/profile' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/tables' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make[4] (Makefile.corelib.lib): Nothing to be done for `all'. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/composition_adjustment' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/logging' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/profile' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/composition_adjustment' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/logging' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/tables' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/winmasker' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/profile' +make[6]: warning: -j12 forced in submake: resetting jobserver mode. +make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/winmasker' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/logging' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/tables' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/profile' +cd corelib/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=corelib UNIX_PROJ="" sources= configurables=configurables.null +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/regexp' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/tables' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/profile' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/logging' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/logging' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/profile TMPL=utrtprof -w -j12 --jobserver-auth=7,8 all -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/tables TMPL=tables -w -j12 --jobserver-auth=7,8 all /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/composition_adjustment TMPL=composition_adjustment -w -j12 --jobserver-auth=7,8 all -cd util/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=util UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' -cd util/sequtil/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=sequtil UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/regexp' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/logging TMPL=logging -w -j12 --jobserver-auth=7,8 all -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/sequtil' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/regexp' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/profile TMPL=utrtprof -w -j12 --jobserver-auth=7,8 all +make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/winmasker' +make[6]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/regexp' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/winmasker' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/regexp' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/logging TMPL=logging -w -j12 --jobserver-auth=7,8 all +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/Makefile.windowmasker_2.2.22_adapter builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker -w -j12 --jobserver-auth=9,10 all +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/tables TMPL=tables -w -j12 --jobserver-auth=7,8 all make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' /bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/legacy_blast.pl /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin /bin/ln -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/legacy_blast.pl /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/legacy_blast.pl make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +/usr/bin/make[4] (Makefile.regexp.lib): Nothing to be done for `all'. +make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[6]: warning: -j12 forced in submake: resetting jobserver mode. +make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[6]: warning: -j12 forced in submake: resetting jobserver mode. +make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/regexp' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[6]: warning: -j12 forced in submake: resetting jobserver mode. +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/Makefile.update_blastdb builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast -w -j12 --jobserver-auth=9,10 all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/composition_adjustment' +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/composition_adjustment/compo_heap.c -o compo_heap.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/composition_adjustment/compo_mode_condition.c -o compo_mode_condition.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/composition_adjustment/composition_adjustment.c -o composition_adjustment.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/composition_adjustment/matrix_frequency_data.c -o matrix_frequency_data.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/composition_adjustment/nlm_linear_algebra.c -o nlm_linear_algebra.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test' +/usr/bin/make[4] (Makefile.corelib.lib): Nothing to be done for `all'. +make[6]: warning: -j12 forced in submake: resetting jobserver mode. make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/winmasker' /bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/windowmasker_2.2.22_adapter.py /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin /bin/ln -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/windowmasker_2.2.22_adapter.py /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/windowmasker_2.2.22_adapter.py make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/winmasker' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make[4] (Makefile.regexp.lib): Nothing to be done for `all'. +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/composition_adjustment/compo_heap.c:137:1: warning: 's_CompoHeapIsValid' defined but not used [-Wunused-function] + 137 | s_CompoHeapIsValid(BlastCompo_HeapRecord * heapArray, int i, int n) + | ^~~~~~~~~~~~~~~~~~ +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' +cd util/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=util UNIX_PROJ="" sources= configurables=configurables.null +cd util/sequtil/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=sequtil UNIX_PROJ="" sources= configurables=configurables.null +cd objtools/blast/gene_info_reader/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=gene_info UNIX_PROJ="" sources= configurables=configurables.null +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/composition_adjustment/redo_alignment.c:200:1: warning: 's_DistinctAlignmentsLength' defined but not used [-Wunused-function] + 200 | s_DistinctAlignmentsLength(BlastCompo_Alignment * list) + | ^~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/composition_adjustment/redo_alignment.c:185:1: warning: 's_AlignmentsAreSorted' defined but not used [-Wunused-function] + 185 | s_AlignmentsAreSorted(BlastCompo_Alignment * alignments) + | ^~~~~~~~~~~~~~~~~~~~~ +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader' +make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/update_blastdb.pl /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/update_blastdb.pl /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/update_blastdb.pl +make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/sequtil' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' make[6]: warning: -j12 forced in submake: resetting jobserver mode. make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' +cd html/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=html UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/html' make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' make[6]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test' -cd objtools/blast/gene_info_reader/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=gene_info UNIX_PROJ="" sources= configurables=configurables.null +make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/Makefile.get_species_taxids builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast -w -j12 --jobserver-auth=9,10 all make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/winmasker' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/Makefile.update_blastdb builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast -w -j12 --jobserver-auth=9,10 all -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/regexp' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/winmasker' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/sequtil' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -cd html/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=html UNIX_PROJ="" sources= configurables=configurables.null +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/html' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/winmasker' cd corelib/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=test_boost UNIX_PROJ="" sources= configurables=configurables.null -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/sequtil' -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/html' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/html' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/sequtil' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/sequtil' -/usr/bin/make[4] (Makefile.util.lib): Nothing to be done for `all'. -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/sequtil TMPL=sequtil -w -j12 --jobserver-auth=7,8 all -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/html' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/html' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[6]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/sequtil' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/html' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/html' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/sequtil' +/usr/bin/make[4] (Makefile.util.lib): Nothing to be done for `all'. +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/gene_info_reader TMPL=gene_info -w -j12 --jobserver-auth=7,8 all +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/html TMPL=html -w -j12 --jobserver-auth=7,8 all make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util' cd util/xregexp/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=xregexp UNIX_PROJ="" sources= configurables=configurables.null -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/composition_adjustment' -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/composition_adjustment/compo_heap.c -o compo_heap.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/composition_adjustment/compo_mode_condition.c -o compo_mode_condition.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/composition_adjustment/composition_adjustment.c -o composition_adjustment.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/composition_adjustment/matrix_frequency_data.c -o matrix_frequency_data.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/composition_adjustment/nlm_linear_algebra.c -o nlm_linear_algebra.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/sequtil TMPL=sequtil -w -j12 --jobserver-auth=7,8 all make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/xregexp' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/gene_info_reader TMPL=gene_info -w -j12 --jobserver-auth=7,8 all -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/html TMPL=html -w -j12 --jobserver-auth=7,8 all -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/composition_adjustment/compo_heap.c:137:1: warning: 's_CompoHeapIsValid' defined but not used [-Wunused-function] - 137 | s_CompoHeapIsValid(BlastCompo_HeapRecord * heapArray, int i, int n) - | ^~~~~~~~~~~~~~~~~~ +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +/usr/bin/make[4] (Makefile.test_boost.lib): Nothing to be done for `all'. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/xregexp' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/xregexp' -/usr/bin/make[4] (Makefile.test_boost.lib): Nothing to be done for `all'. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/html' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/html/node.cpp -o node.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/html/html.cpp -o html.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/html/htmlhelper.cpp -o htmlhelper.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/html/page.cpp -o page.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/html/pager.cpp -o pager.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/html/selection.cpp -o selection.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/nmake[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/xregexp' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/xregexp' +make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/get_species_taxids.sh /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/get_species_taxids.sh /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/get_species_taxids.sh +make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' cd serial/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=serial UNIX_PROJ="" sources= configurables=configurables.null -/usr/bin/make[4] (Makefile.xregexp.lib): Nothing to be done for `all'. make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial' make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[6]: warning: -j12 forced in submake: resetting jobserver mode. +make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[6]: warning: -j12 forced in submake: resetting jobserver mode. +make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/sequtil' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/sequtil/sequtil.cpp -o sequtil.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/sequtil/sequtil_convert.cpp -o sequtil_convert.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/sequtil/sequtil_convert_imp.cpp -o sequtil_convert_imp.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/sequtil/sequtil_manip.cpp -o sequtil_manip.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/sequtil/sequtil_tables.cpp -o sequtil_tables.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/sequtil/sequtil_shared/usr/bin/make[4] (Makefile.xregexp.lib): Nothing to be done for `all'. +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/Makefile.cleanup-blastdb-volumes builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast -w -j12 --jobserver-auth=9,10 all make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/xregexp' cd connect/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=xconnect UNIX_PROJ="" sources= configurables=configurables.null -make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' +cd util/compress/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=compress UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/api' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/sequtil' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/sequtil/sequtil.cpp -o sequtil.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/sequtil/sequtil_convert.cpp -o sequtil_convert.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/sequtil/sequtil_convert_imp.cpp -o sequtil_convert_imp.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/sequtil/sequtil_manip.cpp -o sequtil_manip.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/sequtil/sequtil_tables.cpp -o sequtil_tables.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/sequtil/sequtil_shared/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial TMPL=serial -w -j12 --jobserver-auth=7,8 all -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/composition_adjustment/redo_alignment.c:200:1: warning: 's_DistinctAlignmentsLength' defined but not used [-Wunused-function] - 200 | s_DistinctAlignmentsLength(BlastCompo_Alignment * list) - | ^~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/composition_adjustment/redo_alignment.c:185:1: warning: 's_AlignmentsAreSorted' defined but not used [-Wunused-function] - 185 | s_AlignmentsAreSorted(BlastCompo_Alignment * alignments) - | ^~~~~~~~~~~~~~~~~~~~~ -make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/update_blastdb.pl /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/update_blastdb.pl /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/update_blastdb.pl -make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[6]: warning: -j12 forced in submake: resetting jobserver mode. +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial TMPL=serial -w -j12 --jobserver-auth=7,8 all make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/api' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' -make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[6]: warning: -j12 forced in submake: resetting jobserver mode. -make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[6]: warning: -j12 forced in submake: resetting jobserver mode. -make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/api' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/compress/api TMPL=compress -w -j12 --jobserver-auth=7,8 all /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect TMPL=xconnect -w -j12 --jobserver-auth=7,8 all -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/Makefile.get_species_taxids builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast -w -j12 --jobserver-auth=9,10 all /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/run_with_lock: Adjusting base from make_xconnect to make__connect_common per /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/.#lock-map. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/html' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/html/node.cpp -o node.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/html/html.cpp -o html.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/html/htmlhelper.cpp -o htmlhelper.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/html/page.cpp -o page.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/html/pager.cpp -o pager.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/html/selection.cpp -o selection.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/nmake[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/cleanup-blastdb-volumes.py /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/cleanup-blastdb-volumes.py /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/cleanup-blastdb-volumes.py +make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial' /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/hookdata.cpp -o hookdata.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/hookdatakey.cpp -o hookdatakey.o @@ -6295,23 +6358,29 @@ /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objectinfo.cpp -o objectinfo.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objectiter.cpp -o objectiter.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objectio.cpp -o objectio.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmpmake[6]: warning: -j12 forced in submake: resetting jobserver mode. +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmpmake[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' /usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbsmd_stub.c -o ncbi_lbsmd_stub.o /usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_ansi_ext.c -o ncbi_ansi_ext.o /usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_types.c -o ncbi_types.o /usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_core.c -o ncbi_core.o /usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.c -o ncbi_priv.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_servicep.h:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbsmd.h:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbsmd_stub.c:33: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:91:31: warning: ISO C restricts enumerator values to range of 'int' before C2X [-Wpedantic] - 91 | fSERV_IncludePrivate = 0x80000000, - | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:92:31: warning: ISO C restricts enumerator values to range of 'int' before C2X [-Wpedantic] - 92 | fSERV_Promiscuous = 0xF8000000 /**< Evrthng and the kitchen sink */ - | ^~~~~~~~~~ - -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_util.c -o ncbi_util.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC /usr/bin/make[4] (Makefile.blast_app_util.lib): Nothing to be done for `export-headers'. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/api' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/compress/api/compress.cpp -o compress.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/compress/api/stream.cpp -o stream.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/compress/api/streambuf.cpp -o streambuf.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/compress/api/stream_util.cpp -o stream_util.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/compress/api/bzip2.cpp -o bzip2.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/compress/api/zlib.cpp -o zlib.o -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_util.c -o ncbi_util.o /usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_buffer.c -o ncbi_buffer.o /usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c -o ncbi_socket.o /usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connector.c -o ncbi_connector.o @@ -6321,6 +6390,26 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connssl.h:48:25: warning: ISO C restricts enumerator values to range of 'int' before C2X [-Wpedantic] 48 | eNcbiCred_MbedTls = 0xC12CC114 | ^~~~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/tables' +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/tables/raw_scoremat.c -o raw_scoremat.o +/bin/rm -f libtables.so .libtables.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libtables.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC raw_scoremat.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libtables.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libtables.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libtables.so +/bin/ln -f .tables.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.tables.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/tables' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/tables' +cd cgi/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=cgi UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/cgi' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:62, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_once.h:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:77: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_DoLog': +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connutil.c:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connssl.h:48:25: warning: ISO C restricts enumerator values to range of 'int' before C2X [-Wpedantic] + 48 | eNcbiCred_MbedTls = 0xC12CC114 + | ^~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:62, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connector.c:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connector.c: In function 'METACONN_Remove': @@ -6361,14 +6450,51 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connector.c:92:9: note: in expansion of macro 'METACONN_LOG' 92 | METACONN_LOG(33, connector->next ? eLOG_Error : eLOG_Critical, | ^~~~~~~~~~~~ -make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/get_species_taxids.sh /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/get_species_taxids.sh /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/get_species_taxids.sh -make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connutil.c:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connssl.h:48:25: warning: ISO C restricts enumerator values to range of 'int' before C2X [-Wpedantic] - 48 | eNcbiCred_MbedTls = 0xC12CC114 - | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:530:9: note: in expansion of macro 'CORE_LOGF_X' + 530 | CORE_LOGF_X(112, level, + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:247:5: note: in expansion of macro 'DO_CORE_LOG_X' + 247 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, data, size) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:199:5: note: in expansion of macro 'DO_CORE_LOG_DATA' + 199 | DO_CORE_LOG_DATA(NCBI_C_ERRCODE_X, subcode, level, data, size, \ + | ^~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:569:9: note: in expansion of macro 'CORE_DATAF_X' + 569 | CORE_DATAF_X(109, level, data, size, + | ^~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:601:9: note: in expansion of macro 'CORE_LOGF_X' + 601 | CORE_LOGF_X(113, level, + | ^~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:62, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_util.c:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_util.c: In function 'CORE_SetLOGFILE_NAME_Ex': @@ -6378,6 +6504,22 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' 224 | _mess.func = CORE_CURRENT_FUNCTION; \ | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:609:9: note: in expansion of macro 'CORE_LOGF_X' + 609 | CORE_LOGF_X(1, eLOG_Error, + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_InitAPI_': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) | ^~~~~~~~~~~~~ @@ -6387,32 +6529,340 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_util.c:153:9: note: in expansion of macro 'CORE_LOGF_ERRNO_X' 153 | CORE_LOGF_ERRNO_X(1, eLOG_Error, errno, | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:902:32: warning: format '%p' expects argument of type 'void *', but argument 3 has type 'FSSLSetup' {aka 'const struct SOCKSSL_struct * (*)(void)'} [-Wformat=] + 902 | sprintf(buf, "%p()", s_SSLSetup); + | ~^ ~~~~~~~~~~ + | | | + | | FSSLSetup {aka const struct SOCKSSL_struct * (*)(void)} + | void * +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:159:5: note: in expansion of macro 'DO_CORE_LOG' + 159 | DO_CORE_LOG(0, 0, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:906:13: note: in expansion of macro 'CORE_LOGF' + 906 | CORE_LOGF(eLOG_Critical, + | ^~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:155:5: note: in expansion of macro 'DO_CORE_LOG' + 155 | DO_CORE_LOG(0, 0, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:914:13: note: in expansion of macro 'CORE_LOG' + 914 | CORE_LOG(eLOG_Critical, "Secure Socket Layer (SSL) has not" + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_servicep.h:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connutil.c:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbsmd.h:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbsmd_stub.c:33: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:91:31: warning: ISO C restricts enumerator values to range of 'int' before C2X [-Wpedantic] 91 | fSERV_IncludePrivate = 0x80000000, | ^~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:92:31: warning: ISO C restricts enumerator values to range of 'int' before C2X [-Wpedantic] 92 | fSERV_Promiscuous = 0xF8000000 /**< Evrthng and the kitchen sink */ | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_gethostname': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:179:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 179 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:1069:13: note: in expansion of macro 'CORE_LOG_ERRNO_EXX' + 1069 | CORE_LOG_ERRNO_EXX(103, eLOG_Error, + | ^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:1078:13: note: in expansion of macro 'CORE_LOGF_X' + 1078 | CORE_LOGF_X(104, eLOG_Error, + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_gethostbyname_': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:1259:17: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 1259 | CORE_LOGF_ERRNO_EXX(106, eLOG_Warning, + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_getlocalhostaddress': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:1298:9: note: in expansion of macro 'CORE_LOGF_X' + 1298 | CORE_LOGF_X(9, reget == eDefault ? eLOG_Warning : eLOG_Error, + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_gethostbyname': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:1328:9: note: in expansion of macro 'CORE_LOGF_X' + 1328 | CORE_LOGF_X(155, eLOG_Warning, + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_gethostbyaddr_': In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_servicep.h:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbsmd.h:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_host_info.c:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connutil.c:37: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:91:31: warning: ISO C restricts enumerator values to range of 'int' before C2X [-Wpedantic] 91 | fSERV_IncludePrivate = 0x80000000, | ^~~~~~~~~~ -make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[6]: warning: -j12 forced in submake: resetting jobserver mode. -make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[6]: warning: -j12 forced in submake: resetting jobserver mode. -make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:1460:17: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 1460 | CORE_LOGF_ERRNO_EXX(108, eLOG_Warning, + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_gethostbyaddr': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:1494:9: note: in expansion of macro 'CORE_LOGF_X' + 1494 | CORE_LOGF_X(10, eLOG_Warning, + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'x_TryLowerSockFileno': +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/cgi' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/cgi' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:92:31: warning: ISO C restricts enumerator values to range of 'int' before C2X [-Wpedantic] 92 | fSERV_Promiscuous = 0xF8000000 /**< Evrthng and the kitchen sink */ | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:1628:13: note: in expansion of macro 'CORE_LOGF_X' + 1628 | CORE_LOGF_X(111, eLOG_Trace, + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_Select_': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:167:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 167 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, 0, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:1753:21: note: in expansion of macro 'CORE_LOGF_ERRNO_X' + 1753 | CORE_LOGF_ERRNO_X(145, eLOG_Error, errno, + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:1882:17: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 1882 | CORE_LOGF_ERRNO_EXX(5, eLOG_Warning, + | ^~~~~~~~~~~~~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/cgi' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/cgi' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_Poll_': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:167:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 167 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, 0, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:2026:9: note: in expansion of macro 'CORE_LOGF_ERRNO_X' + 2026 | CORE_LOGF_ERRNO_X(146, eLOG_Critical, errno, + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:2171:17: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 2171 | CORE_LOGF_ERRNO_EXX(147, ready ? eLOG_Warning : eLOG_Error, + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_IsConnected_': +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi TMPL=cgi -w -j12 --jobserver-auth=7,8 all +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:159:5: note: in expansion of macro 'DO_CORE_LOG' + 159 | DO_CORE_LOG(0, 0, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:2747:13: note: in expansion of macro 'CORE_LOGF' + 2747 | CORE_LOGF(eLOG_Trace, + | ^~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:2757:13: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 2757 | CORE_LOGF_ERRNO_EXX(6, eLOG_Trace, + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/run_with_lock: Adjusting base from make_cgi to make__cgi_common per /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/.#lock-map. +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:159:5: note: in expansion of macro 'DO_CORE_LOG' + 159 | DO_CORE_LOG(0, 0, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:2795:25: note: in expansion of macro 'CORE_LOGF' + 2795 | CORE_LOGF(eLOG_Trace, + | ^~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_Recv': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:2951:13: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 2951 | CORE_LOGF_ERRNO_EXX(7, eLOG_Trace, + | ^~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:62, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c: In function 'x_ReInit': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_Read_': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:167:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 167 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, 0, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:3136:17: note: in expansion of macro 'CORE_LOGF_ERRNO_X' + 3136 | CORE_LOGF_ERRNO_X(8, eLOG_Error, errno, + | ^~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:62, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connutil.c:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connutil.c: In function 'ConnNetInfo_Log': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -6498,15 +6948,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:394:9: note: in expansion of macro 'CONN_LOG' 394 | CONN_LOG(5, Open, eLOG_Error, "Failed to open connection"); | ^~~~~~~~ -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/Makefile.cleanup-blastdb-volumes builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast -w -j12 --jobserver-auth=9,10 all -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/tables' -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/tables/raw_scoremat.c -o raw_scoremat.o -/bin/rm -f libtables.so .libtables.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libtables.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC raw_scoremat.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libtables.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libtables.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libtables.so -/bin/ln -f .tables.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.tables.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/tables' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c: In function 'CONN_CreateEx': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ @@ -6529,6 +6970,27 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:436:9: note: in expansion of macro 'CONN_LOG' 436 | CONN_LOG(2, Create, eLOG_Error, "NULL connector"); | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_servicep.h:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbsmd.h:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_host_info.c:33: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:91:31: warning: ISO C restricts enumerator values to range of 'int' before C2X [-Wpedantic] + 91 | fSERV_IncludePrivate = 0x80000000, + | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:92:31: warning: ISO C restricts enumerator values to range of 'int' before C2X [-Wpedantic] + 92 | fSERV_Promiscuous = 0xF8000000 /**< Evrthng and the kitchen sink */ + | ^~~~~~~~~~ +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_Send': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:137:54: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 137 | LOG_Write(lg, code, subcode, level, THIS_MODULE, CORE_CURRENT_FUNCTION, \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connutil.c:1728:9: note: in expansion of macro 'LOG_WRITE' + 1728 | LOG_WRITE(lg, NCBI_C_ERRCODE_X, 11, + | ^~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connutil.c: In function 'URL_ConnectEx': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c: In function 'CONN_ReInit': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ @@ -6643,10 +7105,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:475:5: note: in expansion of macro 'CONN_NOT_NULL_EX' 475 | CONN_NOT_NULL_EX(7, Description, 0); | ^~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:62, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_once.h:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:77: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_DoLog': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -6659,24 +7117,16 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:530:9: note: in expansion of macro 'CORE_LOGF_X' - 530 | CORE_LOGF_X(112, level, - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:247:5: note: in expansion of macro 'DO_CORE_LOG_X' - 247 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, data, size) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:199:5: note: in expansion of macro 'DO_CORE_LOG_DATA' - 199 | DO_CORE_LOG_DATA(NCBI_C_ERRCODE_X, subcode, level, data, size, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:71:7: note: in expansion of macro 'CORE_LOGF_X' + 71 | CORE_LOGF_X(subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:112:11: note: in expansion of macro 'CONN_LOG_EX' + 112 | CONN_LOG_EX(subcode, func_name, eLOG_Critical, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:475:5: note: in expansion of macro 'CONN_NOT_NULL_EX' + 475 | CONN_NOT_NULL_EX(7, Description, 0); | ^~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:569:9: note: in expansion of macro 'CORE_DATAF_X' - 569 | CORE_DATAF_X(109, level, data, size, - | ^~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c: In function 'CONN_GetPosition': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -6689,9 +7139,15 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:601:9: note: in expansion of macro 'CORE_LOGF_X' - 601 | CORE_LOGF_X(113, level, - | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:71:7: note: in expansion of macro 'CORE_LOGF_X' + 71 | CORE_LOGF_X(subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:105:11: note: in expansion of macro 'CONN_LOG_EX' + 105 | CONN_LOG_EX(subcode, func_name, eLOG_Error, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:487:5: note: in expansion of macro 'CONN_NOT_NULL_EX' + 487 | CONN_NOT_NULL_EX(30, GetPosition, 0); + | ^~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -6704,16 +7160,15 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:609:9: note: in expansion of macro 'CORE_LOGF_X' - 609 | CORE_LOGF_X(1, eLOG_Error, - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_InitAPI_': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:902:32: warning: format '%p' expects argument of type 'void *', but argument 3 has type 'FSSLSetup' {aka 'const struct SOCKSSL_struct * (*)(void)'} [-Wformat=] - 902 | sprintf(buf, "%p()", s_SSLSetup); - | ~^ ~~~~~~~~~~ - | | | - | | FSSLSetup {aka const struct SOCKSSL_struct * (*)(void)} - | void * +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:71:7: note: in expansion of macro 'CORE_LOGF_X' + 71 | CORE_LOGF_X(subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:112:11: note: in expansion of macro 'CONN_LOG_EX' + 112 | CONN_LOG_EX(subcode, func_name, eLOG_Critical, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:487:5: note: in expansion of macro 'CONN_NOT_NULL_EX' + 487 | CONN_NOT_NULL_EX(30, GetPosition, 0); + | ^~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -6723,12 +7178,16 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:159:5: note: in expansion of macro 'DO_CORE_LOG' - 159 | DO_CORE_LOG(0, 0, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:906:13: note: in expansion of macro 'CORE_LOGF' - 906 | CORE_LOGF(eLOG_Critical, - | ^~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:71:7: note: in expansion of macro 'CORE_LOGF_X' + 71 | CORE_LOGF_X(subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:500:9: note: in expansion of macro 'CONN_LOG_EX' + 500 | CONN_LOG_EX(31, GetPosition, eLOG_Error, errbuf, 0); + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c: In function 'CONN_SetTimeout': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -6738,25 +7197,21 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:155:5: note: in expansion of macro 'DO_CORE_LOG' - 155 | DO_CORE_LOG(0, 0, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:914:13: note: in expansion of macro 'CORE_LOG' - 914 | CORE_LOG(eLOG_Critical, "Secure Socket Layer (SSL) has not" - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:62, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connutil.c:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connutil.c: In function 'ConnNetInfo_Log': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:137:54: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 137 | LOG_Write(lg, code, subcode, level, THIS_MODULE, CORE_CURRENT_FUNCTION, \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connutil.c:1728:9: note: in expansion of macro 'LOG_WRITE' - 1728 | LOG_WRITE(lg, NCBI_C_ERRCODE_X, 11, - | ^~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_gethostname': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:71:7: note: in expansion of macro 'CORE_LOGF_X' + 71 | CORE_LOGF_X(subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:105:11: note: in expansion of macro 'CONN_LOG_EX' + 105 | CONN_LOG_EX(subcode, func_name, eLOG_Error, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:118:34: note: in expansion of macro 'CONN_NOT_NULL_EX' + 118 | #define CONN_NOT_NULL(s_c, f_n) CONN_NOT_NULL_EX(s_c, f_n, eIO_InvalidArg) + | ^~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:516:5: note: in expansion of macro 'CONN_NOT_NULL' + 516 | CONN_NOT_NULL(8, SetTimeout); + | ^~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -6766,28 +7221,17 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:179:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 179 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:1069:13: note: in expansion of macro 'CORE_LOG_ERRNO_EXX' - 1069 | CORE_LOG_ERRNO_EXX(103, eLOG_Error, - | ^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:1078:13: note: in expansion of macro 'CORE_LOGF_X' - 1078 | CORE_LOGF_X(104, eLOG_Error, - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_gethostbyname_': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:3487:13: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 3487 | CORE_LOGF_ERRNO_EXX(11, eLOG_Trace, + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_WriteData': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:3575:31: warning: ordered comparison of pointer with integer zero [-Wpedantic] + 3575 | n_written > 0 ? " [encrypt]" : 0); + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_WritePending': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -6800,8 +7244,8 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:1259:17: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 1259 | CORE_LOGF_ERRNO_EXX(106, eLOG_Warning, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:3639:17: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 3639 | CORE_LOGF_ERRNO_EXX(12, sock->log != eOff | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ @@ -6812,19 +7256,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' + 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:71:7: note: in expansion of macro 'CORE_LOGF_X' - 71 | CORE_LOGF_X(subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:112:11: note: in expansion of macro 'CONN_LOG_EX' - 112 | CONN_LOG_EX(subcode, func_name, eLOG_Critical, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:475:5: note: in expansion of macro 'CONN_NOT_NULL_EX' - 475 | CONN_NOT_NULL_EX(7, Description, 0); - | ^~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c: In function 'CONN_GetPosition': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connutil.c:1944:9: note: in expansion of macro 'CORE_LOG_X' + 1944 | CORE_LOG_X(2, eLOG_Critical, "[URL_Connect] Bad argument(s)"); + | ^~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -6837,15 +7274,10 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:71:7: note: in expansion of macro 'CORE_LOGF_X' - 71 | CORE_LOGF_X(subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:105:11: note: in expansion of macro 'CONN_LOG_EX' - 105 | CONN_LOG_EX(subcode, func_name, eLOG_Error, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:487:5: note: in expansion of macro 'CONN_NOT_NULL_EX' - 487 | CONN_NOT_NULL_EX(30, GetPosition, 0); - | ^~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connutil.c:1981:9: note: in expansion of macro 'CORE_LOGF_X' + 1981 | CORE_LOGF_X(3, eLOG_Warning, + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_Shutdown': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -6864,9 +7296,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:112:11: note: in expansion of macro 'CONN_LOG_EX' 112 | CONN_LOG_EX(subcode, func_name, eLOG_Critical, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:487:5: note: in expansion of macro 'CONN_NOT_NULL_EX' - 487 | CONN_NOT_NULL_EX(30, GetPosition, 0); - | ^~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:118:34: note: in expansion of macro 'CONN_NOT_NULL_EX' + 118 | #define CONN_NOT_NULL(s_c, f_n) CONN_NOT_NULL_EX(s_c, f_n, eIO_InvalidArg) + | ^~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:516:5: note: in expansion of macro 'CONN_NOT_NULL' + 516 | CONN_NOT_NULL(8, SetTimeout); + | ^~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -6882,10 +7317,10 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:71:7: note: in expansion of macro 'CORE_LOGF_X' 71 | CORE_LOGF_X(subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:500:9: note: in expansion of macro 'CONN_LOG_EX' - 500 | CONN_LOG_EX(31, GetPosition, eLOG_Error, errbuf, 0); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:556:9: note: in expansion of macro 'CONN_LOG_EX' + 556 | CONN_LOG_EX(9, SetTimeout, eLOG_Error, errbuf, eIO_InvalidArg); | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c: In function 'CONN_SetTimeout': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c: In function 'CONN_GetTimeout': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -6904,12 +7339,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:105:11: note: in expansion of macro 'CONN_LOG_EX' 105 | CONN_LOG_EX(subcode, func_name, eLOG_Error, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:118:34: note: in expansion of macro 'CONN_NOT_NULL_EX' - 118 | #define CONN_NOT_NULL(s_c, f_n) CONN_NOT_NULL_EX(s_c, f_n, eIO_InvalidArg) - | ^~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:516:5: note: in expansion of macro 'CONN_NOT_NULL' - 516 | CONN_NOT_NULL(8, SetTimeout); - | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:572:5: note: in expansion of macro 'CONN_NOT_NULL_EX' + 572 | CONN_NOT_NULL_EX(10, GetTimeout, 0); + | ^~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -6928,61 +7360,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:112:11: note: in expansion of macro 'CONN_LOG_EX' 112 | CONN_LOG_EX(subcode, func_name, eLOG_Critical, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:118:34: note: in expansion of macro 'CONN_NOT_NULL_EX' - 118 | #define CONN_NOT_NULL(s_c, f_n) CONN_NOT_NULL_EX(s_c, f_n, eIO_InvalidArg) - | ^~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:516:5: note: in expansion of macro 'CONN_NOT_NULL' - 516 | CONN_NOT_NULL(8, SetTimeout); - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connutil.c: In function 'URL_ConnectEx': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_getlocalhostaddress': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:1298:9: note: in expansion of macro 'CORE_LOGF_X' - 1298 | CORE_LOGF_X(9, reget == eDefault ? eLOG_Warning : eLOG_Error, - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' - 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connutil.c:1944:9: note: in expansion of macro 'CORE_LOG_X' - 1944 | CORE_LOG_X(2, eLOG_Critical, "[URL_Connect] Bad argument(s)"); - | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_gethostbyname': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:1328:9: note: in expansion of macro 'CORE_LOGF_X' - 1328 | CORE_LOGF_X(155, eLOG_Warning, - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_gethostbyaddr_': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:572:5: note: in expansion of macro 'CONN_NOT_NULL_EX' + 572 | CONN_NOT_NULL_EX(10, GetTimeout, 0); + | ^~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -6995,9 +7375,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connutil.c:1981:9: note: in expansion of macro 'CORE_LOGF_X' - 1981 | CORE_LOGF_X(3, eLOG_Warning, - | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:3813:21: note: in expansion of macro 'CORE_LOGF_X' + 3813 | CORE_LOGF_X(13, !tv || (tv->tv_sec | tv->tv_usec) + | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -7010,10 +7390,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:1460:17: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 1460 | CORE_LOGF_ERRNO_EXX(108, eLOG_Warning, - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_gethostbyaddr': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:3849:25: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 3849 | CORE_LOGF_ERRNO_EXX(127, eLOG_Trace, + | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -7026,11 +7405,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:1494:9: note: in expansion of macro 'CORE_LOGF_X' - 1494 | CORE_LOGF_X(10, eLOG_Warning, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:71:7: note: in expansion of macro 'CORE_LOGF_X' + 71 | CORE_LOGF_X(subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:580:9: note: in expansion of macro 'CONN_LOG_EX' + 580 | CONN_LOG_EX(11, GetTimeout, eLOG_Warning, | ^~~~~~~~~~~ -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/tables' -cd util/compress/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=compress UNIX_PROJ="" sources= configurables=configurables.null /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -7061,11 +7441,10 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:71:7: note: in expansion of macro 'CORE_LOGF_X' 71 | CORE_LOGF_X(subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:556:9: note: in expansion of macro 'CONN_LOG_EX' - 556 | CONN_LOG_EX(9, SetTimeout, eLOG_Error, errbuf, eIO_InvalidArg); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:595:9: note: in expansion of macro 'CONN_LOG_EX' + 595 | CONN_LOG_EX(12, GetTimeout, eLOG_Error, errbuf, 0); | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'x_TryLowerSockFileno': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c: In function 'CONN_GetTimeout': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c: In function 'CONN_Wait': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -7084,24 +7463,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:105:11: note: in expansion of macro 'CONN_LOG_EX' 105 | CONN_LOG_EX(subcode, func_name, eLOG_Error, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:572:5: note: in expansion of macro 'CONN_NOT_NULL_EX' - 572 | CONN_NOT_NULL_EX(10, GetTimeout, 0); - | ^~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:118:34: note: in expansion of macro 'CONN_NOT_NULL_EX' + 118 | #define CONN_NOT_NULL(s_c, f_n) CONN_NOT_NULL_EX(s_c, f_n, eIO_InvalidArg) + | ^~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:611:5: note: in expansion of macro 'CONN_NOT_NULL' + 611 | CONN_NOT_NULL(13, Wait); | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:1628:13: note: in expansion of macro 'CORE_LOGF_X' - 1628 | CORE_LOGF_X(111, eLOG_Trace, - | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -7135,9 +7502,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:112:11: note: in expansion of macro 'CONN_LOG_EX' 112 | CONN_LOG_EX(subcode, func_name, eLOG_Critical, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:572:5: note: in expansion of macro 'CONN_NOT_NULL_EX' - 572 | CONN_NOT_NULL_EX(10, GetTimeout, 0); - | ^~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:118:34: note: in expansion of macro 'CONN_NOT_NULL_EX' + 118 | #define CONN_NOT_NULL(s_c, f_n) CONN_NOT_NULL_EX(s_c, f_n, eIO_InvalidArg) + | ^~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:611:5: note: in expansion of macro 'CONN_NOT_NULL' + 611 | CONN_NOT_NULL(13, Wait); + | ^~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -7153,9 +7523,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:71:7: note: in expansion of macro 'CORE_LOGF_X' 71 | CORE_LOGF_X(subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:580:9: note: in expansion of macro 'CONN_LOG_EX' - 580 | CONN_LOG_EX(11, GetTimeout, eLOG_Warning, - | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:82:39: note: in expansion of macro 'CONN_LOG_EX' + 82 | #define CONN_LOG(s_c, f_n, lvl, msg) CONN_LOG_EX(s_c, f_n, lvl, msg, status) + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:659:9: note: in expansion of macro 'CONN_LOG' + 659 | CONN_LOG(event != eIO_Read ? 15 : 14, Wait, level, + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -7171,26 +7544,30 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connutil.c:2072:9: note: in expansion of macro 'CORE_LOGF_ERRNO_X' 2072 | CORE_LOGF_ERRNO_X(6, eLOG_Error, x_errno, | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_Select_': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' 224 | _mess.func = CORE_CURRENT_FUNCTION; \ | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:71:7: note: in expansion of macro 'CORE_LOGF_X' - 71 | CORE_LOGF_X(subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:595:9: note: in expansion of macro 'CONN_LOG_EX' - 595 | CONN_LOG_EX(12, GetTimeout, eLOG_Error, errbuf, 0); - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:3900:9: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 3900 | CORE_LOGF_ERRNO_EXX(16, eLOG_Trace, + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_Close_': +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/cgi' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/ncbicgi.cpp -o ncbicgi.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/cgiapp.cpp -o cgiapp.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/cgictx.cpp -o cgictx.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/ncbicgir.cpp -o ncbicgir.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/ncbires.cpp -o ncbires.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/ref_args.cpp -o ref_args.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproduc/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' @@ -7199,28 +7576,28 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:167:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 167 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, 0, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:1753:21: note: in expansion of macro 'CORE_LOGF_ERRNO_X' - 1753 | CORE_LOGF_ERRNO_X(145, eLOG_Error, errno, - | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:3981:17: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 3981 | CORE_LOGF_ERRNO_EXX(17, eLOG_Trace, + | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' 224 | _mess.func = CORE_CURRENT_FUNCTION; \ | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connutil.c:2119:9: note: in expansion of macro 'CORE_LOGF_X' - 2119 | CORE_LOGF_X(7, eLOG_Error, - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connutil.c: In function 'URL_Connect': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:3997:21: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 3997 | CORE_LOGF_ERRNO_EXX(18, eLOG_Trace, + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c: In function 's_CONN_Write': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -7230,43 +7607,40 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' - 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connutil.c:2152:9: note: in expansion of macro 'CORE_LOG_X' - 2152 | CORE_LOG_X(9, eLOG_Error, - | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:1882:17: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 1882 | CORE_LOGF_ERRNO_EXX(5, eLOG_Warning, - | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:71:7: note: in expansion of macro 'CORE_LOGF_X' + 71 | CORE_LOGF_X(subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:82:39: note: in expansion of macro 'CONN_LOG_EX' + 82 | #define CONN_LOG(s_c, f_n, lvl, msg) CONN_LOG_EX(s_c, f_n, lvl, msg, status) + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:680:9: note: in expansion of macro 'CONN_LOG' + 680 | CONN_LOG(16, Write, eLOG_Critical, "Cannot write data"); + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' 224 | _mess.func = CORE_CURRENT_FUNCTION; \ | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:167:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 167 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, 0, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connutil.c:2194:17: note: in expansion of macro 'CORE_LOGF_ERRNO_X' - 2194 | CORE_LOGF_ERRNO_X(8, eLOG_Error, errno, - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c: In function 'CONN_Wait': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:71:7: note: in expansion of macro 'CORE_LOGF_X' + 71 | CORE_LOGF_X(subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:82:39: note: in expansion of macro 'CONN_LOG_EX' + 82 | #define CONN_LOG(s_c, f_n, lvl, msg) CONN_LOG_EX(s_c, f_n, lvl, msg, status) + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:723:13: note: in expansion of macro 'CONN_LOG' + 723 | CONN_LOG(17, Write, level, "Unable to write data"); + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c: In function 'CONN_Write': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -7288,8 +7662,8 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:118:34: note: in expansion of macro 'CONN_NOT_NULL_EX' 118 | #define CONN_NOT_NULL(s_c, f_n) CONN_NOT_NULL_EX(s_c, f_n, eIO_InvalidArg) | ^~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:611:5: note: in expansion of macro 'CONN_NOT_NULL' - 611 | CONN_NOT_NULL(13, Wait); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:762:5: note: in expansion of macro 'CONN_NOT_NULL' + 762 | CONN_NOT_NULL(18, Write); | ^~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ @@ -7312,8 +7686,8 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:118:34: note: in expansion of macro 'CONN_NOT_NULL_EX' 118 | #define CONN_NOT_NULL(s_c, f_n) CONN_NOT_NULL_EX(s_c, f_n, eIO_InvalidArg) | ^~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:611:5: note: in expansion of macro 'CONN_NOT_NULL' - 611 | CONN_NOT_NULL(13, Wait); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:762:5: note: in expansion of macro 'CONN_NOT_NULL' + 762 | CONN_NOT_NULL(18, Write); | ^~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ @@ -7327,16 +7701,10 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:71:7: note: in expansion of macro 'CORE_LOGF_X' - 71 | CORE_LOGF_X(subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:82:39: note: in expansion of macro 'CONN_LOG_EX' - 82 | #define CONN_LOG(s_c, f_n, lvl, msg) CONN_LOG_EX(s_c, f_n, lvl, msg, status) - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:659:9: note: in expansion of macro 'CONN_LOG' - 659 | CONN_LOG(event != eIO_Read ? 15 : 14, Wait, level, - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c: In function 's_CONN_Write': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connutil.c:2119:9: note: in expansion of macro 'CORE_LOGF_X' + 2119 | CORE_LOGF_X(7, eLOG_Error, + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connutil.c: In function 'URL_Connect': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -7346,72 +7714,45 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' + 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:71:7: note: in expansion of macro 'CORE_LOGF_X' - 71 | CORE_LOGF_X(subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:82:39: note: in expansion of macro 'CONN_LOG_EX' - 82 | #define CONN_LOG(s_c, f_n, lvl, msg) CONN_LOG_EX(s_c, f_n, lvl, msg, status) - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:680:9: note: in expansion of macro 'CONN_LOG' - 680 | CONN_LOG(16, Write, eLOG_Critical, "Cannot write data"); - | ^~~~~~~~ -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/api' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connutil.c:2152:9: note: in expansion of macro 'CORE_LOG_X' + 2152 | CORE_LOG_X(9, eLOG_Error, + | ^~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' 224 | _mess.func = CORE_CURRENT_FUNCTION; \ | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:71:7: note: in expansion of macro 'CORE_LOGF_X' - 71 | CORE_LOGF_X(subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:82:39: note: in expansion of macro 'CONN_LOG_EX' - 82 | #define CONN_LOG(s_c, f_n, lvl, msg) CONN_LOG_EX(s_c, f_n, lvl, msg, status) - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:723:13: note: in expansion of macro 'CONN_LOG' - 723 | CONN_LOG(17, Write, level, "Unable to write data"); - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c: In function 'CONN_Write': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4059:9: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 4059 | CORE_LOGF_ERRNO_EXX(19, eLOG_Trace, + | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' 224 | _mess.func = CORE_CURRENT_FUNCTION; \ | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:71:7: note: in expansion of macro 'CORE_LOGF_X' - 71 | CORE_LOGF_X(subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:105:11: note: in expansion of macro 'CONN_LOG_EX' - 105 | CONN_LOG_EX(subcode, func_name, eLOG_Error, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:118:34: note: in expansion of macro 'CONN_NOT_NULL_EX' - 118 | #define CONN_NOT_NULL(s_c, f_n) CONN_NOT_NULL_EX(s_c, f_n, eIO_InvalidArg) - | ^~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:762:5: note: in expansion of macro 'CONN_NOT_NULL' - 762 | CONN_NOT_NULL(18, Write); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) | ^~~~~~~~~~~~~ -2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_ipv6.c -o ncbi_ipv6.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_server_info.c -o ncbi_server_info.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_host_info.c -o ncbi_host_info.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_service.c -o ncbi_service.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c -o ncbi_sendmail.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4099:17: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 4099 | CORE_LOGF_ERRNO_EXX(21, abort == 1 ? eLOG_Warning : eLOG_Error, + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_Connect_': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c: In function 'CONN_Pushback': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' @@ -7426,17 +7767,15 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:71:7: note: in expansion of macro 'CORE_LOGF_X' 71 | CORE_LOGF_X(subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:112:11: note: in expansion of macro 'CONN_LOG_EX' - 112 | CONN_LOG_EX(subcode, func_name, eLOG_Critical, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:105:11: note: in expansion of macro 'CONN_LOG_EX' + 105 | CONN_LOG_EX(subcode, func_name, eLOG_Error, \ | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:118:34: note: in expansion of macro 'CONN_NOT_NULL_EX' 118 | #define CONN_NOT_NULL(s_c, f_n) CONN_NOT_NULL_EX(s_c, f_n, eIO_InvalidArg) | ^~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:762:5: note: in expansion of macro 'CONN_NOT_NULL' - 762 | CONN_NOT_NULL(18, Write); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:797:5: note: in expansion of macro 'CONN_NOT_NULL' + 797 | CONN_NOT_NULL(19, Pushback); | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_Poll_': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c: In function 'CONN_Pushback': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -7452,8 +7791,8 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:71:7: note: in expansion of macro 'CORE_LOGF_X' 71 | CORE_LOGF_X(subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:105:11: note: in expansion of macro 'CONN_LOG_EX' - 105 | CONN_LOG_EX(subcode, func_name, eLOG_Error, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:112:11: note: in expansion of macro 'CONN_LOG_EX' + 112 | CONN_LOG_EX(subcode, func_name, eLOG_Critical, \ | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:118:34: note: in expansion of macro 'CONN_NOT_NULL_EX' 118 | #define CONN_NOT_NULL(s_c, f_n) CONN_NOT_NULL_EX(s_c, f_n, eIO_InvalidArg) @@ -7461,21 +7800,22 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:797:5: note: in expansion of macro 'CONN_NOT_NULL' 797 | CONN_NOT_NULL(19, Pushback); | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c: In function 'CONN_Flush': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' 224 | _mess.func = CORE_CURRENT_FUNCTION; \ | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:167:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 167 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, 0, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:2026:9: note: in expansion of macro 'CORE_LOGF_ERRNO_X' - 2026 | CORE_LOGF_ERRNO_X(146, eLOG_Critical, errno, - | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4203:13: note: in expansion of macro 'CORE_LOGF_X' + 4203 | CORE_LOGF_X(142, eLOG_Error, + | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -7488,19 +7828,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:71:7: note: in expansion of macro 'CORE_LOGF_X' - 71 | CORE_LOGF_X(subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:112:11: note: in expansion of macro 'CONN_LOG_EX' - 112 | CONN_LOG_EX(subcode, func_name, eLOG_Critical, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:118:34: note: in expansion of macro 'CONN_NOT_NULL_EX' - 118 | #define CONN_NOT_NULL(s_c, f_n) CONN_NOT_NULL_EX(s_c, f_n, eIO_InvalidArg) - | ^~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:797:5: note: in expansion of macro 'CONN_NOT_NULL' - 797 | CONN_NOT_NULL(19, Pushback); - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c: In function 'CONN_Flush': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4228:13: note: in expansion of macro 'CORE_LOGF_X' + 4228 | CORE_LOGF_X(22, eLOG_Error, + | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -7525,7 +7855,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:817:5: note: in expansion of macro 'CONN_NOT_NULL' 817 | CONN_NOT_NULL(20, Flush); | ^~~~~~~~~~~~~ -make[6]: warning: -j12 forced in submake: resetting jobserver mode. /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -7599,21 +7928,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' 224 | _mess.func = CORE_CURRENT_FUNCTION; \ | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:2171:17: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 2171 | CORE_LOGF_ERRNO_EXX(147, ready ? eLOG_Warning : eLOG_Error, - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ @@ -7632,6 +7946,21 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' 224 | _mess.func = CORE_CURRENT_FUNCTION; \ | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:167:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 167 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, 0, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connutil.c:2194:17: note: in expansion of macro 'CORE_LOGF_ERRNO_X' + 2194 | CORE_LOGF_ERRNO_X(8, eLOG_Error, errno, + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ @@ -7672,7 +8001,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:971:5: note: in expansion of macro 'CONN_NOT_NULL' 971 | CONN_NOT_NULL(24, Read); | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_IsConnected_': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -7682,21 +8010,21 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:159:5: note: in expansion of macro 'DO_CORE_LOG' - 159 | DO_CORE_LOG(0, 0, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:2747:13: note: in expansion of macro 'CORE_LOGF' - 2747 | CORE_LOGF(eLOG_Trace, - | ^~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_servicep.h:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_dispd.h:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_service.c:34: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:91:31: warning: ISO C restricts enumerator values to range of 'int' before C2X [-Wpedantic] - 91 | fSERV_IncludePrivate = 0x80000000, - | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:92:31: warning: ISO C restricts enumerator values to range of 'int' before C2X [-Wpedantic] - 92 | fSERV_Promiscuous = 0xF8000000 /**< Evrthng and the kitchen sink */ - | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:71:7: note: in expansion of macro 'CORE_LOGF_X' + 71 | CORE_LOGF_X(subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:112:11: note: in expansion of macro 'CONN_LOG_EX' + 112 | CONN_LOG_EX(subcode, func_name, eLOG_Critical, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:118:34: note: in expansion of macro 'CONN_NOT_NULL_EX' + 118 | #define CONN_NOT_NULL(s_c, f_n) CONN_NOT_NULL_EX(s_c, f_n, eIO_InvalidArg) + | ^~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:971:5: note: in expansion of macro 'CONN_NOT_NULL' + 971 | CONN_NOT_NULL(24, Read); + | ^~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -7709,35 +8037,24 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:2757:13: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 2757 | CORE_LOGF_ERRNO_EXX(6, eLOG_Trace, - | ^~~~~~~~~~~~~~~~~~~ -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -cd cgi/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=cgi UNIX_PROJ="" sources= configurables=configurables.null +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4254:9: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 4254 | CORE_LOGF_ERRNO_EXX(23, eLOG_Error, + | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' 224 | _mess.func = CORE_CURRENT_FUNCTION; \ | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:71:7: note: in expansion of macro 'CORE_LOGF_X' - 71 | CORE_LOGF_X(subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:112:11: note: in expansion of macro 'CONN_LOG_EX' - 112 | CONN_LOG_EX(subcode, func_name, eLOG_Critical, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:118:34: note: in expansion of macro 'CONN_NOT_NULL_EX' - 118 | #define CONN_NOT_NULL(s_c, f_n) CONN_NOT_NULL_EX(s_c, f_n, eIO_InvalidArg) - | ^~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:971:5: note: in expansion of macro 'CONN_NOT_NULL' - 971 | CONN_NOT_NULL(24, Read); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4316:13: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 4316 | CORE_LOGF_ERRNO_EXX(151, eLOG_Warning, + | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c: In function 'CONN_ReadLine': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ @@ -7805,39 +8122,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:1067:17: note: in expansion of macro 'CONN_LOG_EX' 1067 | CONN_LOG_EX(35, ReadLine, eLOG_Critical, | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:159:5: note: in expansion of macro 'DO_CORE_LOG' - 159 | DO_CORE_LOG(0, 0, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:2795:25: note: in expansion of macro 'CORE_LOGF' - 2795 | CORE_LOGF(eLOG_Trace, - | ^~~~~~~~~ -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/cgi' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_Recv': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:2951:13: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 2951 | CORE_LOGF_ERRNO_EXX(7, eLOG_Trace, - | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c: In function 'CONN_Status': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ @@ -7894,6 +8178,36 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' 224 | _mess.func = CORE_CURRENT_FUNCTION; \ | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4327:13: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 4327 | CORE_LOGF_ERRNO_EXX(135, eLOG_Warning, + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4372:13: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 4372 | CORE_LOGF_ERRNO_EXX(131, eLOG_Error, + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ @@ -7937,9 +8251,6 @@ 1132 | CONN_NOT_NULL(27, Close); | ^~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c: In function 'CONN_SetCallback': -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/api' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -8006,6 +8317,36 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:1158:9: note: in expansion of macro 'CONN_LOG_EX' 1158 | CONN_LOG_EX(29, SetCallback, eLOG_Error, errbuf, eIO_InvalidArg); | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4420:17: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 4420 | CORE_LOGF_ERRNO_EXX(25, sock->log != eOff + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4462:17: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 4462 | CORE_LOGF_ERRNO_EXX(26, sock->log != eOff + | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c: In function 'CONN_GetSOCK': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ @@ -8055,7 +8396,21 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:1180:5: note: in expansion of macro 'CONN_NOT_NULL' 1180 | CONN_NOT_NULL(36, GetSOCK); | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_Read_': +2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_ipv6.c -o ncbi_ipv6.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_server_info.c -o ncbi_server_info.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_host_info.c -o ncbi_host_info.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_service.c -o ncbi_service.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c -o ncbi_sendmail.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbiIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_servicep.h:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_dispd.h:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_service.c:34: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:91:31: warning: ISO C restricts enumerator values to range of 'int' before C2X [-Wpedantic] + 91 | fSERV_IncludePrivate = 0x80000000, + | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:92:31: warning: ISO C restricts enumerator values to range of 'int' before C2X [-Wpedantic] + 92 | fSERV_Promiscuous = 0xF8000000 /**< Evrthng and the kitchen sink */ + | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_Create': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -8068,12 +8423,185 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:167:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' 167 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, 0, \ | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:3136:17: note: in expansion of macro 'CORE_LOGF_ERRNO_X' - 3136 | CORE_LOGF_ERRNO_X(8, eLOG_Error, errno, - | ^~~~~~~~~~~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/api' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4570:9: note: in expansion of macro 'CORE_LOGF_ERRNO_X' + 4570 | CORE_LOGF_ERRNO_X(27, eLOG_Error, errno, + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_CreateOnTop': +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/ncbicgir.cpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:85: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:77: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:76: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4632:9: note: in expansion of macro 'CORE_LOGF_X' + 4632 | CORE_LOGF_X(47, eLOG_Error, + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4690:13: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 4690 | CORE_LOGF_ERRNO_EXX(148, eLOG_Error, + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4734:17: note: in expansion of macro 'CORE_LOGF_X' + 4734 | CORE_LOGF_X(48, eLOG_Error, + | ^~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_servicep.h:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:91:31: warning: ISO C restricts enumerator values to range of 'int' before C2X [-Wpedantic] @@ -8115,7 +8643,22 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_service.c:140:13: note: in expansion of macro 'CORE_LOGF_X' 140 | CORE_LOGF_X(8, eLOG_Error, | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_Send': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_service.c: In function 'x_Open': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_service.c:380:13: note: in expansion of macro 'CORE_LOGF_X' + 380 | CORE_LOGF_X(1, eLOG_Error, + | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -8128,26 +8671,39 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:3487:13: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 3487 | CORE_LOGF_ERRNO_EXX(11, eLOG_Trace, - | ^~~~~~~~~~~~~~~~~~~ -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/compress/api TMPL=compress -w -j12 --jobserver-auth=7,8 all -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_service.c: In function 'x_Open': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4783:9: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 4783 | CORE_LOGF_ERRNO_EXX(50, eLOG_Error, + | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' 224 | _mess.func = CORE_CURRENT_FUNCTION; \ | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_service.c:380:13: note: in expansion of macro 'CORE_LOGF_X' - 380 | CORE_LOGF_X(1, eLOG_Error, - | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:167:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 167 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, 0, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4800:9: note: in expansion of macro 'CORE_LOGF_ERRNO_X' + 4800 | CORE_LOGF_ERRNO_X(49, eLOG_Error, errno, + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4887:17: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 4887 | CORE_LOGF_ERRNO_EXX(132, eLOG_Error, + | ^~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:62, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c: In function 's_SendRcpt': @@ -8220,28 +8776,22 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:430:13: note: in expansion of macro 'SENDMAIL_RETURN2' 430 | SENDMAIL_RETURN2(5, proto_error, buf); | ^~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_WriteData': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:3575:31: warning: ordered comparison of pointer with integer zero [-Wpedantic] - 3575 | n_written > 0 ? " [encrypt]" : 0); - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_WritePending': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c: In function 'CORE_SendMailEx': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' 224 | _mess.func = CORE_CURRENT_FUNCTION; \ | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:3639:17: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 3639 | CORE_LOGF_ERRNO_EXX(12, sock->log != eOff - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_Shutdown': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c: In function 'CORE_SendMailEx': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:159:5: note: in expansion of macro 'DO_CORE_LOG' + 159 | DO_CORE_LOG(0, 0, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4909:17: note: in expansion of macro 'CORE_LOGF' + 4909 | CORE_LOGF(eLOG_Trace, + | ^~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -8320,6 +8870,21 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' 224 | _mess.func = CORE_CURRENT_FUNCTION; \ | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4938:13: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 4938 | CORE_LOGF_ERRNO_EXX(153, eLOG_Warning, + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ @@ -8362,63 +8927,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:3813:21: note: in expansion of macro 'CORE_LOGF_X' - 3813 | CORE_LOGF_X(13, !tv || (tv->tv_sec | tv->tv_usec) - | ^~~~~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/cgi' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/cgi' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:3849:25: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 3849 | CORE_LOGF_ERRNO_EXX(127, eLOG_Trace, - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_service.c: In function 'SERV_SetImplicitServerType': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_service.c:1115:9: warning: pointer 'svc' may be used after 'realloc' [-Wuse-after-free] - 1115 | free(svc); - | ^~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_service.c:1113:25: note: call to 'realloc' here - 1113 | if (!(buf = (char*) realloc(svc, len + sizeof(CONN_IMPLICIT_SERVER_TYPE) - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 1114 | + 2/*"=\0"*/) + strlen(typ))) { - | ~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:3900:9: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 3900 | CORE_LOGF_ERRNO_EXX(16, eLOG_Trace, - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:364:9: note: in expansion of macro 'CORE_LOGF_X' 364 | CORE_LOGF_X(subcode, eLOG_Error, \ | ^~~~~~~~~~~ @@ -8479,6 +8987,48 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:550:9: note: in expansion of macro 'SENDMAIL_RETURN' 550 | SENDMAIL_RETURN(15, "Write error in DATA command"); | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_service.c: In function 'SERV_SetImplicitServerType': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_service.c:1115:9: warning: pointer 'svc' may be used after 'realloc' [-Wuse-after-free] + 1115 | free(svc); + | ^~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_service.c:1113:25: note: call to 'realloc' here + 1113 | if (!(buf = (char*) realloc(svc, len + sizeof(CONN_IMPLICIT_SERVER_TYPE) + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 1114 | + 2/*"=\0"*/) + strlen(typ))) { + | ~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4949:13: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 4949 | CORE_LOGF_ERRNO_EXX(138, eLOG_Warning, + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4972:9: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 4972 | CORE_LOGF_ERRNO_EXX(124, eLOG_Warning, + | ^~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:62, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:115: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c: In function 'HEAP_Create': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -8515,60 +9065,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:583:21: note: in expansion of macro 'SENDMAIL_RETURN' 583 | SENDMAIL_RETURN(32, "Write error in sending Date"); | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_Close_': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:3981:17: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 3981 | CORE_LOGF_ERRNO_EXX(17, eLOG_Trace, - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:3997:21: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 3997 | CORE_LOGF_ERRNO_EXX(18, eLOG_Trace, - | ^~~~~~~~~~~~~~~~~~~ -make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/cleanup-blastdb-volumes.py /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/cleanup-blastdb-volumes.py /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/cleanup-blastdb-volumes.py -make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/cgi' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/cgi' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4059:9: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 4059 | CORE_LOGF_ERRNO_EXX(19, eLOG_Trace, - | ^~~~~~~~~~~~~~~~~~~ -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi TMPL=cgi -w -j12 --jobserver-auth=7,8 all /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -8656,6 +9152,116 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:616:9: note: in expansion of macro 'CORE_LOG_X' 616 | CORE_LOG_X(2, eLOG_Warning, | ^~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/ncbicgi.cpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:85: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:77: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -8668,12 +9274,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:347:9: note: in expansion of macro 'CORE_LOGF_X' - 347 | CORE_LOGF_X(subcode, eLOG_Error, ("[SendMail] %s", reason)); \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:273:9: note: in expansion of macro 'CORE_LOGF_X' + 273 | CORE_LOGF_X(1, eLOG_Error, | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:627:9: note: in expansion of macro 'SENDMAIL_RETURN' - 627 | SENDMAIL_RETURN(20, "Write error in sending mailer information"); - | ^~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -8686,27 +9289,25 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:347:9: note: in expansion of macro 'CORE_LOGF_X' - 347 | CORE_LOGF_X(subcode, eLOG_Error, ("[SendMail] %s", reason)); \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:655:17: note: in expansion of macro 'SENDMAIL_RETURN' - 655 | SENDMAIL_RETURN(21, "Write error while sending custom header"); - | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:295:13: note: in expansion of macro 'CORE_LOGF_X' + 295 | CORE_LOGF_X(2, eLOG_Warning, + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c: In function 'HEAP_AttachFast': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' 224 | _mess.func = CORE_CURRENT_FUNCTION; \ | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4099:17: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 4099 | CORE_LOGF_ERRNO_EXX(21, abort == 1 ? eLOG_Warning : eLOG_Error, - | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:319:9: note: in expansion of macro 'CORE_LOGF_X' + 319 | CORE_LOGF_X(3, eLOG_Warning, + | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -8719,12 +9320,10 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:364:9: note: in expansion of macro 'CORE_LOGF_X' - 364 | CORE_LOGF_X(subcode, eLOG_Error, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:329:9: note: in expansion of macro 'CORE_LOGF_X' + 329 | CORE_LOGF_X(4, eLOG_Warning, | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:664:13: note: in expansion of macro 'SENDMAIL_RETURN2' - 664 | SENDMAIL_RETURN2(22, error, buffer); - | ^~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c: In function 'HEAP_Attach': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -8737,12 +9336,10 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:347:9: note: in expansion of macro 'CORE_LOGF_X' - 347 | CORE_LOGF_X(subcode, eLOG_Error, ("[SendMail] %s", reason)); \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:667:13: note: in expansion of macro 'SENDMAIL_RETURN' - 667 | SENDMAIL_RETURN(23, "Write error in finalizing custom header"); - | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:360:17: note: in expansion of macro 'CORE_LOGF_X' + 360 | CORE_LOGF_X(34, eLOG_Error, + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c: In function 's_HEAP_Find': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -8755,30 +9352,25 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:347:9: note: in expansion of macro 'CORE_LOGF_X' - 347 | CORE_LOGF_X(subcode, eLOG_Error, ("[SendMail] %s", reason)); \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:451:9: note: in expansion of macro 'CORE_LOGF_X' + 451 | CORE_LOGF_X(8, eLOG_Error, | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:676:17: note: in expansion of macro 'SENDMAIL_RETURN' - 676 | SENDMAIL_RETURN(24, "Write error in message body delimiter"); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_Connect_': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/run_with_lock: Adjusting base from make_cgi to make__cgi_common per /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/.#lock-map. -make[5]: warning: -j12 forced in submake: resetting jobserver mode. /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' 224 | _mess.func = CORE_CURRENT_FUNCTION; \ | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4203:13: note: in expansion of macro 'CORE_LOGF_X' - 4203 | CORE_LOGF_X(142, eLOG_Error, - | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4990:13: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 4990 | CORE_LOGF_ERRNO_EXX(43, eLOG_Warning, + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_CreateListening': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -8791,9 +9383,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4228:13: note: in expansion of macro 'CORE_LOGF_X' - 4228 | CORE_LOGF_X(22, eLOG_Error, - | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:347:9: note: in expansion of macro 'CORE_LOGF_X' + 347 | CORE_LOGF_X(subcode, eLOG_Error, ("[SendMail] %s", reason)); \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:627:9: note: in expansion of macro 'SENDMAIL_RETURN' + 627 | SENDMAIL_RETURN(20, "Write error in sending mailer information"); + | ^~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -8809,8 +9404,8 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:347:9: note: in expansion of macro 'CORE_LOGF_X' 347 | CORE_LOGF_X(subcode, eLOG_Error, ("[SendMail] %s", reason)); \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:702:17: note: in expansion of macro 'SENDMAIL_RETURN' - 702 | SENDMAIL_RETURN(25, "Write error while sending message body"); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:655:17: note: in expansion of macro 'SENDMAIL_RETURN' + 655 | SENDMAIL_RETURN(21, "Write error while sending custom header"); | ^~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ @@ -8827,8 +9422,8 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:364:9: note: in expansion of macro 'CORE_LOGF_X' 364 | CORE_LOGF_X(subcode, eLOG_Error, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:711:13: note: in expansion of macro 'SENDMAIL_RETURN2' - 711 | SENDMAIL_RETURN2(26, error, buffer); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:664:13: note: in expansion of macro 'SENDMAIL_RETURN2' + 664 | SENDMAIL_RETURN2(22, error, buffer); | ^~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ @@ -8845,8 +9440,8 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:347:9: note: in expansion of macro 'CORE_LOGF_X' 347 | CORE_LOGF_X(subcode, eLOG_Error, ("[SendMail] %s", reason)); \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:715:13: note: in expansion of macro 'SENDMAIL_RETURN' - 715 | SENDMAIL_RETURN(27, "Write error while finalizing message body"); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:667:13: note: in expansion of macro 'SENDMAIL_RETURN' + 667 | SENDMAIL_RETURN(23, "Write error in finalizing custom header"); | ^~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ @@ -8863,58 +9458,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:347:9: note: in expansion of macro 'CORE_LOGF_X' 347 | CORE_LOGF_X(subcode, eLOG_Error, ("[SendMail] %s", reason)); \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:718:9: note: in expansion of macro 'SENDMAIL_RETURN' - 718 | SENDMAIL_RETURN(28, "Write error while finalizing message"); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:364:9: note: in expansion of macro 'CORE_LOGF_X' - 364 | CORE_LOGF_X(subcode, eLOG_Error, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:723:9: note: in expansion of macro 'SENDMAIL_RETURN2' - 723 | SENDMAIL_RETURN2(29, "Protocol error in sending message", buffer); - | ^~~~~~~~~~~~~~~~ -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4254:9: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 4254 | CORE_LOGF_ERRNO_EXX(23, eLOG_Error, - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4316:13: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 4316 | CORE_LOGF_ERRNO_EXX(151, eLOG_Warning, - | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:676:17: note: in expansion of macro 'SENDMAIL_RETURN' + 676 | SENDMAIL_RETURN(24, "Write error in message body delimiter"); + | ^~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -8930,9 +9476,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:347:9: note: in expansion of macro 'CORE_LOGF_X' 347 | CORE_LOGF_X(subcode, eLOG_Error, ("[SendMail] %s", reason)); \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:726:9: note: in expansion of macro 'SENDMAIL_RETURN' - 726 | SENDMAIL_RETURN(30, "Write error in QUIT command"); - | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:702:17: note: in expansion of macro 'SENDMAIL_RETURN' + 702 | SENDMAIL_RETURN(25, "Write error while sending message body"); + | ^~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -8948,86 +9494,29 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:364:9: note: in expansion of macro 'CORE_LOGF_X' 364 | CORE_LOGF_X(subcode, eLOG_Error, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:728:9: note: in expansion of macro 'SENDMAIL_RETURN2' - 728 | SENDMAIL_RETURN2(31, "Protocol error in QUIT command", buffer); - | ^~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4327:13: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 4327 | CORE_LOGF_ERRNO_EXX(135, eLOG_Warning, - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4372:13: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 4372 | CORE_LOGF_ERRNO_EXX(131, eLOG_Error, - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4420:17: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 4420 | CORE_LOGF_ERRNO_EXX(25, sock->log != eOff - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4462:17: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 4462 | CORE_LOGF_ERRNO_EXX(26, sock->log != eOff - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_Create': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:711:13: note: in expansion of macro 'SENDMAIL_RETURN2' + 711 | SENDMAIL_RETURN2(26, error, buffer); + | ^~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c: In function 's_HEAP_Take': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:636:12: warning: taking address of packed member of 'struct ' may result in an unaligned pointer value [-Waddress-of-packed-member] + 636 | return &b->head; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c: In function 'HEAP_Alloc': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' 224 | _mess.func = CORE_CURRENT_FUNCTION; \ | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:167:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 167 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, 0, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4570:9: note: in expansion of macro 'CORE_LOGF_ERRNO_X' - 4570 | CORE_LOGF_ERRNO_X(27, eLOG_Error, errno, - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_CreateOnTop': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' + 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:649:9: note: in expansion of macro 'CORE_LOG_X' + 649 | CORE_LOG_X(6, eLOG_Warning, "Heap Alloc: NULL heap"); + | ^~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -9040,8 +9529,8 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4632:9: note: in expansion of macro 'CORE_LOGF_X' - 4632 | CORE_LOGF_X(47, eLOG_Error, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:655:9: note: in expansion of macro 'CORE_LOGF_X' + 655 | CORE_LOGF_X(7, eLOG_Error, | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ @@ -9049,145 +9538,16 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' 224 | _mess.func = CORE_CURRENT_FUNCTION; \ | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4690:13: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 4690 | CORE_LOGF_ERRNO_EXX(148, eLOG_Error, - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4734:17: note: in expansion of macro 'CORE_LOGF_X' - 4734 | CORE_LOGF_X(48, eLOG_Error, - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4783:9: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 4783 | CORE_LOGF_ERRNO_EXX(50, eLOG_Error, - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:167:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 167 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, 0, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4800:9: note: in expansion of macro 'CORE_LOGF_ERRNO_X' - 4800 | CORE_LOGF_ERRNO_X(49, eLOG_Error, errno, - | ^~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_servicep.h:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lb.h:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lb.c:32: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:91:31: warning: ISO C restricts enumerator values to range of 'int' before C2X [-Wpedantic] - 91 | fSERV_IncludePrivate = 0x80000000, - | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:92:31: warning: ISO C restricts enumerator values to range of 'int' before C2X [-Wpedantic] - 92 | fSERV_Promiscuous = 0xF8000000 /**< Evrthng and the kitchen sink */ - | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4887:17: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 4887 | CORE_LOGF_ERRNO_EXX(132, eLOG_Error, - | ^~~~~~~~~~~~~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/compress/api/compress.cpp -o compress.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/compress/api/stream.cpp -o stream.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/compress/api/streambuf.cpp -o streambuf.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/compress/api/stream_util.cpp -o stream_util.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/compress/api/bzip2.cpp -o bzip2.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/compress/api/zlib.cpp -o zlib.o make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:159:5: note: in expansion of macro 'DO_CORE_LOG' - 159 | DO_CORE_LOG(0, 0, level, \ - | make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' - ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4909:17: note: in expansion of macro 'CORE_LOGF' - 4909 | CORE_LOGF(eLOG_Trace, - | ^~~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4938:13: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 4938 | CORE_LOGF_ERRNO_EXX(153, eLOG_Warning, - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4949:13: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 4949 | CORE_LOGF_ERRNO_EXX(138, eLOG_Warning, - | ^~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:62, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:115: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c: In function 'HEAP_Create': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:702:13: note: in expansion of macro 'CORE_LOGF_X' + 702 | CORE_LOGF_X(9, eLOG_Warning, + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c: In function 'HEAP_Free': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -9200,9 +9560,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:273:9: note: in expansion of macro 'CORE_LOGF_X' - 273 | CORE_LOGF_X(1, eLOG_Error, - | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5064:13: note: in expansion of macro 'CORE_LOGF_X' + 5064 | CORE_LOGF_X(144, eLOG_Error, + | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -9212,13 +9572,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' + 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:295:13: note: in expansion of macro 'CORE_LOGF_X' - 295 | CORE_LOGF_X(2, eLOG_Warning, - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c: In function 'HEAP_AttachFast': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:826:9: note: in expansion of macro 'CORE_LOG_X' + 826 | CORE_LOG_X(10, eLOG_Warning, "Heap Free: NULL heap"); + | ^~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -9231,8 +9590,8 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:319:9: note: in expansion of macro 'CORE_LOGF_X' - 319 | CORE_LOGF_X(3, eLOG_Warning, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:832:9: note: in expansion of macro 'CORE_LOGF_X' + 832 | CORE_LOGF_X(11, eLOG_Error, | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ @@ -9246,17 +9605,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:329:9: note: in expansion of macro 'CORE_LOGF_X' - 329 | CORE_LOGF_X(4, eLOG_Warning, - | ^~~~~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/cgi' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/ncbicgi.cpp -o ncbicgi.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/cgiapp.cpp -o cgiapp.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/cgictx.cpp -o cgictx.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/ncbicgir.cpp -o ncbicgir.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/ncbires.cpp -o ncbires.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/ref_args.cpp -o ref_args.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproduc/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c: In function 'HEAP_Attach': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:845:13: note: in expansion of macro 'CORE_LOGF_X' + 845 | CORE_LOGF_X(13, eLOG_Error, + | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -9269,10 +9620,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:360:17: note: in expansion of macro 'CORE_LOGF_X' - 360 | CORE_LOGF_X(34, eLOG_Error, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:853:17: note: in expansion of macro 'CORE_LOGF_X' + 853 | CORE_LOGF_X(12, eLOG_Warning, | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c: In function 's_HEAP_Find': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -9285,14 +9635,10 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:451:9: note: in expansion of macro 'CORE_LOGF_X' - 451 | CORE_LOGF_X(8, eLOG_Error, - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c: In function 's_HEAP_Take': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:636:12: warning: taking address of packed member of 'struct ' may result in an unaligned pointer value [-Waddress-of-packed-member] - 636 | return &b->head; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c: In function 'HEAP_Alloc': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:865:5: note: in expansion of macro 'CORE_LOGF_X' + 865 | CORE_LOGF_X(14, eLOG_Error, + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c: In function 'HEAP_FreeFast': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -9305,8 +9651,8 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:649:9: note: in expansion of macro 'CORE_LOG_X' - 649 | CORE_LOG_X(6, eLOG_Warning, "Heap Alloc: NULL heap"); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:877:9: note: in expansion of macro 'CORE_LOG_X' + 877 | CORE_LOG_X(15, eLOG_Warning, "Heap Free: NULL heap"); | ^~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ @@ -9320,41 +9666,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:655:9: note: in expansion of macro 'CORE_LOGF_X' - 655 | CORE_LOGF_X(7, eLOG_Error, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:883:9: note: in expansion of macro 'CORE_LOGF_X' + 883 | CORE_LOGF_X(16, eLOG_Error, | ^~~~~~~~~~~ -/usr/bin/make[4] (Makefile.blast_app_util.lib): Nothing to be done for `export-headers'. -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4972:9: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 4972 | CORE_LOGF_ERRNO_EXX(124, eLOG_Warning, - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4990:13: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 4990 | CORE_LOGF_ERRNO_EXX(43, eLOG_Warning, - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_CreateListening': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -9367,25 +9681,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:702:13: note: in expansion of macro 'CORE_LOGF_X' - 702 | CORE_LOGF_X(9, eLOG_Warning, - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c: In function 'HEAP_Free': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' - 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:826:9: note: in expansion of macro 'CORE_LOG_X' - 826 | CORE_LOG_X(10, eLOG_Warning, "Heap Free: NULL heap"); - | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:347:9: note: in expansion of macro 'CORE_LOGF_X' + 347 | CORE_LOGF_X(subcode, eLOG_Error, ("[SendMail] %s", reason)); \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:715:13: note: in expansion of macro 'SENDMAIL_RETURN' + 715 | SENDMAIL_RETURN(27, "Write error while finalizing message body"); + | ^~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -9398,9 +9699,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:832:9: note: in expansion of macro 'CORE_LOGF_X' - 832 | CORE_LOGF_X(11, eLOG_Error, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:347:9: note: in expansion of macro 'CORE_LOGF_X' + 347 | CORE_LOGF_X(subcode, eLOG_Error, ("[SendMail] %s", reason)); \ | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:718:9: note: in expansion of macro 'SENDMAIL_RETURN' + 718 | SENDMAIL_RETURN(28, "Write error while finalizing message"); + | ^~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -9413,9 +9717,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:845:13: note: in expansion of macro 'CORE_LOGF_X' - 845 | CORE_LOGF_X(13, eLOG_Error, - | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:364:9: note: in expansion of macro 'CORE_LOGF_X' + 364 | CORE_LOGF_X(subcode, eLOG_Error, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:723:9: note: in expansion of macro 'SENDMAIL_RETURN2' + 723 | SENDMAIL_RETURN2(29, "Protocol error in sending message", buffer); + | ^~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -9428,24 +9735,27 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:853:17: note: in expansion of macro 'CORE_LOGF_X' - 853 | CORE_LOGF_X(12, eLOG_Warning, - | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:347:9: note: in expansion of macro 'CORE_LOGF_X' + 347 | CORE_LOGF_X(subcode, eLOG_Error, ("[SendMail] %s", reason)); \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:726:9: note: in expansion of macro 'SENDMAIL_RETURN' + 726 | SENDMAIL_RETURN(30, "Write error in QUIT command"); + | ^~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' 224 | _mess.func = CORE_CURRENT_FUNCTION; \ | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5064:13: note: in expansion of macro 'CORE_LOGF_X' - 5064 | CORE_LOGF_X(144, eLOG_Error, - | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5106:9: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 5106 | CORE_LOGF_ERRNO_EXX(34, eLOG_Error, + | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -9458,25 +9768,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:865:5: note: in expansion of macro 'CORE_LOGF_X' - 865 | CORE_LOGF_X(14, eLOG_Error, - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c: In function 'HEAP_FreeFast': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' - 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:877:9: note: in expansion of macro 'CORE_LOG_X' - 877 | CORE_LOG_X(15, eLOG_Warning, "Heap Free: NULL heap"); - | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:902:13: note: in expansion of macro 'CORE_LOGF_X' + 902 | CORE_LOGF_X(17, eLOG_Error, + | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -9489,9 +9783,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:883:9: note: in expansion of macro 'CORE_LOGF_X' - 883 | CORE_LOGF_X(16, eLOG_Error, - | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:913:13: note: in expansion of macro 'CORE_LOGF_X' + 913 | CORE_LOGF_X(18, eLOG_Warning, + | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -9504,9 +9798,10 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:902:13: note: in expansion of macro 'CORE_LOGF_X' - 902 | CORE_LOGF_X(17, eLOG_Error, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:920:13: note: in expansion of macro 'CORE_LOGF_X' + 920 | CORE_LOGF_X(19, eLOG_Warning, | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c: In function 'HEAP_Trim': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -9519,9 +9814,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:913:13: note: in expansion of macro 'CORE_LOGF_X' - 913 | CORE_LOGF_X(18, eLOG_Warning, - | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:942:9: note: in expansion of macro 'CORE_LOGF_X' + 942 | CORE_LOGF_X(30, eLOG_Error, + | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -9534,10 +9829,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:920:13: note: in expansion of macro 'CORE_LOGF_X' - 920 | CORE_LOGF_X(19, eLOG_Warning, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:977:13: note: in expansion of macro 'CORE_LOGF_X' + 977 | CORE_LOGF_X(31, eLOG_Warning, | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c: In function 'HEAP_Trim': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -9550,24 +9844,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:942:9: note: in expansion of macro 'CORE_LOGF_X' - 942 | CORE_LOGF_X(30, eLOG_Error, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:364:9: note: in expansion of macro 'CORE_LOGF_X' + 364 | CORE_LOGF_X(subcode, eLOG_Error, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5106:9: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 5106 | CORE_LOGF_ERRNO_EXX(34, eLOG_Error, - | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:728:9: note: in expansion of macro 'SENDMAIL_RETURN2' + 728 | SENDMAIL_RETURN2(31, "Protocol error in QUIT command", buffer); + | ^~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -9595,21 +9877,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:977:13: note: in expansion of macro 'CORE_LOGF_X' - 977 | CORE_LOGF_X(31, eLOG_Warning, - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:1004:9: note: in expansion of macro 'CORE_LOGF_X' 1004 | CORE_LOGF_X(32, eLOG_Error, | ^~~~~~~~~~~ @@ -9695,21 +9962,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' 224 | _mess.func = CORE_CURRENT_FUNCTION; \ | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5228:13: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 5228 | CORE_LOGF_ERRNO_EXX(150, eLOG_Error, - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ @@ -9780,21 +10032,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:1224:9: note: in expansion of macro 'CORE_LOG_X' 1224 | CORE_LOG_X(29, eLOG_Warning, "Heap Walk: NULL heap"); | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5298:9: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 5298 | CORE_LOGF_ERRNO_EXX(37, eLOG_Error, - | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:1229:12: warning: taking address of packed member of 'struct ' may result in an unaligned pointer value [-Waddress-of-packed-member] 1229 | return &s_HEAP_Walk(heap, ptr)->head; | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ @@ -9820,25 +10057,37 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:1246:12: warning: taking address of packed member of 'struct ' may result in an unaligned pointer value [-Waddress-of-packed-member] 1246 | return &n->head; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c: In function 'HEAP_Destroy': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' 224 | _mess.func = CORE_CURRENT_FUNCTION; \ | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:1325:9: note: in expansion of macro 'CORE_LOGF_X' - 1325 | CORE_LOGF_X(33, eLOG_Error, - | ^~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:62, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket_connector.c:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket_connector.c: In function 's_VT_Open': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5228:13: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 5228 | CORE_LOGF_ERRNO_EXX(150, eLOG_Error, + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5298:9: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 5298 | CORE_LOGF_ERRNO_EXX(37, eLOG_Error, + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c: In function 'HEAP_Destroy': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -9851,9 +10100,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket_connector.c:172:13: note: in expansion of macro 'CORE_LOGF_X' - 172 | CORE_LOGF_X(33, eLOG_Error, - | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:1325:9: note: in expansion of macro 'CORE_LOGF_X' + 1325 | CORE_LOGF_X(33, eLOG_Error, + | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -9885,6 +10134,15 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5402:9: note: in expansion of macro 'CORE_LOGF_X' 5402 | CORE_LOGF_X(39, eLOG_Error, | ^~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_servicep.h:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lb.h:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lb.c:32: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:91:31: warning: ISO C restricts enumerator values to range of 'int' before C2X [-Wpedantic] + 91 | fSERV_IncludePrivate = 0x80000000, + | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:92:31: warning: ISO C restricts enumerator values to range of 'int' before C2X [-Wpedantic] + 92 | fSERV_Promiscuous = 0xF8000000 /**< Evrthng and the kitchen sink */ + | ^~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -9915,11 +10173,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5517:9: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' 5517 | CORE_LOGF_ERRNO_EXX(41, eLOG_Error, | ^~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/ncbicgi.cpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -9950,6 +10203,13 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5585:13: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' 5585 | CORE_LOGF_ERRNO_EXX(152, eLOG_Warning, | ^~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/ncbires.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ @@ -10055,70 +10315,28 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5596:13: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 5596 | CORE_LOGF_ERRNO_EXX(137, eLOG_Warning, - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5616:9: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 5616 | CORE_LOGF_ERRNO_EXX(128, eLOG_Warning, - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_CloseListening': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5668:9: note: in expansion of macro 'CORE_LOGF_X' - 5668 | CORE_LOGF_X(44, eLOG_Note, - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5694:17: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 5694 | CORE_LOGF_ERRNO_EXX(45, eLOG_Error, - | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:76: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/cgi_run.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/cgictx.cpp:40: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -10227,22 +10445,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_RecvMsg': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5780:17: note: in expansion of macro 'CORE_LOGF_X' - 5780 | CORE_LOGF_X(20, eLOG_Error, - | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:76: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^ @@ -10273,10 +10475,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5829:13: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 5829 | CORE_LOGF_ERRNO_EXX(94, eLOG_Trace, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5596:13: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 5596 | CORE_LOGF_ERRNO_EXX(137, eLOG_Warning, | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_SendMsg': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -10286,57 +10487,15 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:167:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 167 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, 0, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5864:13: note: in expansion of macro 'CORE_LOGF_ERRNO_X' - 5864 | CORE_LOGF_ERRNO_X(154, eLOG_Error, errno, - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5881:9: note: in expansion of macro 'CORE_LOGF_X' - 5881 | CORE_LOGF_X(88, eLOG_Error, - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5890:9: note: in expansion of macro 'CORE_LOGF_X' - 5890 | CORE_LOGF_X(89, eLOG_Error, - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5616:9: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 5616 | CORE_LOGF_ERRNO_EXX(128, eLOG_Warning, + | ^~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/cgictx.cpp:40: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/cgi_run.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -10353,11 +10512,7 @@ 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 142 | const SBuildInfo& build_in ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5940:17: note: in expansion of macro 'CORE_LOGF_X' - 5940 | CORE_LOGF_X(90, eLOG_Error, - | ^~~~~~~~~~~ -fo = NCBI_SBUILDINFO_DEFAULT()) + 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) @@ -10449,6 +10604,22 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_CloseListening': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5668:9: note: in expansion of macro 'CORE_LOGF_X' + 5668 | CORE_LOGF_X(44, eLOG_Note, + | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:76: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^ @@ -10467,10 +10638,32 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5694:17: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 5694 | CORE_LOGF_ERRNO_EXX(45, eLOG_Error, + | ^~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/ncbires.cpp:38: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/cgiapp.cpp:45: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp_cached.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/cgiapp_cached.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -10597,29 +10790,7 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5986:13: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 5986 | CORE_LOGF_ERRNO_EXX(91, eLOG_Trace, - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'TRIGGER_Create': -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/ncbicgir.cpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_RecvMsg': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ @@ -10749,6 +10920,131 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' 224 | _mess.func = CORE_CURRENT_FUNCTION; \ | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5780:17: note: in expansion of macro 'CORE_LOGF_X' + 5780 | CORE_LOGF_X(20, eLOG_Error, + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5829:13: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 5829 | CORE_LOGF_ERRNO_EXX(94, eLOG_Trace, + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_SendMsg': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:167:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 167 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, 0, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5864:13: note: in expansion of macro 'CORE_LOGF_ERRNO_X' + 5864 | CORE_LOGF_ERRNO_X(154, eLOG_Error, errno, + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5881:9: note: in expansion of macro 'CORE_LOGF_X' + 5881 | CORE_LOGF_X(88, eLOG_Error, + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5890:9: note: in expansion of macro 'CORE_LOGF_X' + 5890 | CORE_LOGF_X(89, eLOG_Error, + | ^~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:62, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket_connector.c:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket_connector.c: In function 's_VT_Open': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket_connector.c:172:13: note: in expansion of macro 'CORE_LOGF_X' + 172 | CORE_LOGF_X(33, eLOG_Error, + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5940:17: note: in expansion of macro 'CORE_LOGF_X' + 5940 | CORE_LOGF_X(90, eLOG_Error, + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5986:13: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 5986 | CORE_LOGF_ERRNO_EXX(91, eLOG_Trace, + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'TRIGGER_Create': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) | ^~~~~~~~~~~~~ @@ -10773,14 +11069,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:6041:13: note: in expansion of macro 'CORE_LOGF_ERRNO_X' 6041 | CORE_LOGF_ERRNO_X(143, eLOG_Warning, errno, | ^~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_servicep.h:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:91:31: warning: ISO C restricts enumerator values to range of 'int' before C2X [-Wpedantic] - 91 | fSERV_IncludePrivate = 0x80000000, - | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:92:31: warning: ISO C restricts enumerator values to range of 'int' before C2X [-Wpedantic] - 92 | fSERV_Promiscuous = 0xF8000000 /**< Evrthng and the kitchen sink */ - | ^~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -10811,118 +11099,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:6063:13: note: in expansion of macro 'CORE_LOGF_ERRNO_X' 6063 | CORE_LOGF_ERRNO_X(30, eLOG_Warning, errno, | ^~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/cgiapp.cpp:45: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:85: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:77: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -10954,155 +11130,113 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:6136:9: note: in expansion of macro 'CORE_LOGF_X' 6136 | CORE_LOGF_X(117, eLOG_Note, | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:76: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'LSOCK_GetOSHandleEx': -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp_cached.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/cgiapp_cached.cpp:34: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:85: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:77: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:76: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_servicep.h:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:91:31: warning: ISO C restricts enumerator values to range of 'int' before C2X [-Wpedantic] + 91 | fSERV_IncludePrivate = 0x80000000, + | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:6360:9: note: in expansion of macro 'CORE_LOGF_X' + 6360 | CORE_LOGF_X(46, eLOG_Error, + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'SOCK_Reconnect': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:92:31: warning: ISO C restricts enumerator values to range of 'int' before C2X [-Wpedantic] + 92 | fSERV_Promiscuous = 0xF8000000 /**< Evrthng and the kitchen sink */ + | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:6528:9: note: in expansion of macro 'CORE_LOGF_X' + 6528 | CORE_LOGF_X(52, eLOG_Error, + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:6538:9: note: in expansion of macro 'CORE_LOGF_X' + 6538 | CORE_LOGF_X(53, eLOG_Error, + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:6550:13: note: in expansion of macro 'CORE_LOGF_X' + 6550 | CORE_LOGF_X(51, eLOG_Error, + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'SOCK_Shutdown': +-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_base64.c -o ncbi_base64.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c -o ncbi_heapmgr.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lb.c -o ncbi_lb.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket_connector.c -o ncbi_socket_connector.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_file_connector.c -o ncbi_file_connector.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c -o ncbi_http_connector.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compi/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:6588:9: note: in expansion of macro 'CORE_LOGF_X' + 6588 | CORE_LOGF_X(54, eLOG_Error, + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:6595:9: note: in expansion of macro 'CORE_LOGF_X' + 6595 | CORE_LOGF_X(55, eLOG_Error, + | ^~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:62, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c:38: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c: In function 's_Adjust': @@ -11196,6 +11330,7 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c:695:9: note: in expansion of macro 'CORE_LOGF_X' 695 | CORE_LOGF_X(1, eLOG_Error, | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c: In function 's_Connect': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -11208,11 +11343,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:6360:9: note: in expansion of macro 'CORE_LOGF_X' - 6360 | CORE_LOGF_X(46, eLOG_Error, - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'SOCK_Reconnect': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c: In function 's_Connect': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c:812:13: note: in expansion of macro 'CORE_LOGF_X' + 812 | CORE_LOGF_X(5, eLOG_Critical, + | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -11225,9 +11358,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c:812:13: note: in expansion of macro 'CORE_LOGF_X' - 812 | CORE_LOGF_X(5, eLOG_Critical, - | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:6603:9: note: in expansion of macro 'CORE_LOGF_X' + 6603 | CORE_LOGF_X(15, eLOG_Error, + | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -11243,27 +11376,23 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c:979:21: note: in expansion of macro 'CORE_LOGF_ERRNO_X' 979 | CORE_LOGF_ERRNO_X(20, eLOG_Error, error, | ^~~~~~~~~~~~~~~~~ --blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_base64.c -o ncbi_base64.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c -o ncbi_heapmgr.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lb.c -o ncbi_lb.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket_connector.c -o ncbi_socket_connector.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_file_connector.c -o ncbi_file_connector.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c -o ncbi_http_connector.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compi/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c: In function 's_ConnectAndSend': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'SOCK_Wait': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' 224 | _mess.func = CORE_CURRENT_FUNCTION; \ | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:6528:9: note: in expansion of macro 'CORE_LOGF_X' - 6528 | CORE_LOGF_X(52, eLOG_Error, - | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:167:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 167 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, 0, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c:1203:9: note: in expansion of macro 'CORE_LOGF_ERRNO_X' + 1203 | CORE_LOGF_ERRNO_X(6, uuu->reused ? eLOG_Trace : eLOG_Error, error, + | ^~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -11276,25 +11405,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:6538:9: note: in expansion of macro 'CORE_LOGF_X' - 6538 | CORE_LOGF_X(53, eLOG_Error, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:6749:9: note: in expansion of macro 'CORE_LOGF_X' + 6749 | CORE_LOGF_X(56, eLOG_Error, | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c: In function 's_ConnectAndSend': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:167:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 167 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, 0, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c:1203:9: note: in expansion of macro 'CORE_LOGF_ERRNO_X' - 1203 | CORE_LOGF_ERRNO_X(6, uuu->reused ? eLOG_Trace : eLOG_Error, error, - | ^~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c: In function 'x_ReadChunkHead': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ @@ -11339,10 +11452,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:6550:13: note: in expansion of macro 'CORE_LOGF_X' - 6550 | CORE_LOGF_X(51, eLOG_Error, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:6777:13: note: in expansion of macro 'CORE_LOGF_X' + 6777 | CORE_LOGF_X(57, eLOG_Warning, | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'SOCK_Shutdown': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -11355,9 +11467,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:6588:9: note: in expansion of macro 'CORE_LOGF_X' - 6588 | CORE_LOGF_X(54, eLOG_Error, - | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:6791:13: note: in expansion of macro 'CORE_LOGF_X' + 6791 | CORE_LOGF_X(58, eLOG_Warning, + | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c: In function 's_ReadData': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ @@ -11417,9 +11529,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c:1554:13: note: in expansion of macro 'CORE_LOGF_X' - 1554 | CORE_LOGF_X(8, level, - | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:6805:17: note: in expansion of macro 'CORE_LOGF_X' + 6805 | CORE_LOGF_X(59, eLOG_Warning, + | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -11432,24 +11544,24 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:6595:9: note: in expansion of macro 'CORE_LOGF_X' - 6595 | CORE_LOGF_X(55, eLOG_Error, - | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:6814:17: note: in expansion of macro 'CORE_LOGF_X' + 6814 | CORE_LOGF_X(60, eLOG_Warning, + | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' 224 | _mess.func = CORE_CURRENT_FUNCTION; \ | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:247:5: note: in expansion of macro 'DO_CORE_LOG_X' - 247 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, data, size) +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:199:5: note: in expansion of macro 'DO_CORE_LOG_DATA' - 199 | DO_CORE_LOG_DATA(NCBI_C_ERRCODE_X, subcode, level, data, size, \ - | ^~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c:1623:9: note: in expansion of macro 'CORE_DATAF_X' - 1623 | CORE_DATAF_X(9, fatal ? eLOG_Error : eLOG_Note, hdr, size, - | ^~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:6824:13: note: in expansion of macro 'CORE_LOGF_X' + 6824 | CORE_LOGF_X(61, eLOG_Warning, + | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -11462,9 +11574,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c:1640:17: note: in expansion of macro 'CORE_LOGF_X' - 1640 | CORE_LOGF_X(22, eLOG_Error, - | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:6834:9: note: in expansion of macro 'CORE_LOGF_X' + 6834 | CORE_LOGF_X(62, eLOG_Error, + | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -11477,9 +11589,10 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:6603:9: note: in expansion of macro 'CORE_LOGF_X' - 6603 | CORE_LOGF_X(15, eLOG_Error, - | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c:1554:13: note: in expansion of macro 'CORE_LOGF_X' + 1554 | CORE_LOGF_X(8, level, + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'SOCK_SetTimeout': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -11492,9 +11605,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:199:5: note: in expansion of macro 'DO_CORE_LOG_DATA' 199 | DO_CORE_LOG_DATA(NCBI_C_ERRCODE_X, subcode, level, data, size, \ | ^~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c:1659:17: note: in expansion of macro 'CORE_DATAF_X' - 1659 | CORE_DATAF_X(9, eLOG_Note, hdr, size, - | ^~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c:1623:9: note: in expansion of macro 'CORE_DATAF_X' + 1623 | CORE_DATAF_X(9, fatal ? eLOG_Error : eLOG_Note, hdr, size, + | ^~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -11507,25 +11620,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c:1710:25: note: in expansion of macro 'CORE_LOGF_X' - 1710 | CORE_LOGF_X(10, eLOG_Critical, - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'SOCK_Wait': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:155:5: note: in expansion of macro 'DO_CORE_LOG' - 155 | DO_CORE_LOG(0, 0, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c:1890:21: note: in expansion of macro 'CORE_LOG' - 1890 | CORE_LOG(eLOG_Warning, - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c:1640:17: note: in expansion of macro 'CORE_LOGF_X' + 1640 | CORE_LOGF_X(22, eLOG_Error, + | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -11538,24 +11635,10 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:6749:9: note: in expansion of macro 'CORE_LOGF_X' - 6749 | CORE_LOGF_X(56, eLOG_Error, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:6969:9: note: in expansion of macro 'CORE_LOGF_X' + 6969 | CORE_LOGF_X(63, eLOG_Error, | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:167:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 167 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, 0, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c:1913:13: note: in expansion of macro 'CORE_LOGF_ERRNO_X' - 1913 | CORE_LOGF_ERRNO_X(11, eLOG_Error, error, - | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'SOCK_GetTimeout': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -11568,9 +11651,10 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c:1960:13: note: in expansion of macro 'CORE_LOGF_X' - 1960 | CORE_LOGF_X(19, eLOG_Warning, - | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7010:9: note: in expansion of macro 'CORE_LOGF_X' + 7010 | CORE_LOGF_X(64, eLOG_Error, + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'SOCK_Read': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -11583,8 +11667,8 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c:1965:13: note: in expansion of macro 'CORE_LOGF_X' - 1965 | CORE_LOGF_X(12, err && !(uuu->flags & fHTTP_SuppressMessages) +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7052:13: note: in expansion of macro 'CORE_LOGF_X' + 7052 | CORE_LOGF_X(65, eLOG_Error, | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ @@ -11598,9 +11682,10 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c:1976:17: note: in expansion of macro 'CORE_LOGF_X' - 1976 | CORE_LOGF_X(13, eLOG_Error, - | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7062:9: note: in expansion of macro 'CORE_LOGF_X' + 7062 | CORE_LOGF_X(66, eLOG_Error, + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'SOCK_ReadLine': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -11613,9 +11698,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:6777:13: note: in expansion of macro 'CORE_LOGF_X' - 6777 | CORE_LOGF_X(57, eLOG_Warning, - | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7096:9: note: in expansion of macro 'CORE_LOGF_X' + 7096 | CORE_LOGF_X(125, eLOG_Error, + | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -11628,8 +11713,8 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:199:5: note: in expansion of macro 'DO_CORE_LOG_DATA' 199 | DO_CORE_LOG_DATA(NCBI_C_ERRCODE_X, subcode, level, data, size, \ | ^~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c:1984:17: note: in expansion of macro 'CORE_DATAF_X' - 1984 | CORE_DATAF_X(14, eLOG_Note, s, n, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c:1659:17: note: in expansion of macro 'CORE_DATAF_X' + 1659 | CORE_DATAF_X(9, eLOG_Note, hdr, size, | ^~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ @@ -11643,9 +11728,10 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c:1993:13: note: in expansion of macro 'CORE_LOGF_X' - 1993 | CORE_LOGF_X(15, eLOG_Error, - | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c:1710:25: note: in expansion of macro 'CORE_LOGF_X' + 1710 | CORE_LOGF_X(10, eLOG_Critical, + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'SOCK_Pushback': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -11658,10 +11744,10 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:6791:13: note: in expansion of macro 'CORE_LOGF_X' - 6791 | CORE_LOGF_X(58, eLOG_Warning, - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c: In function 's_Read': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7176:9: note: in expansion of macro 'CORE_LOGF_X' + 7176 | CORE_LOGF_X(67, eLOG_Error, + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'SOCK_Write': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -11674,8 +11760,8 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c:2176:17: note: in expansion of macro 'CORE_LOGF_X' - 2176 | CORE_LOGF_X(16, eLOG_Error, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7233:17: note: in expansion of macro 'CORE_LOGF_X' + 7233 | CORE_LOGF_X(68, eLOG_Error, | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ @@ -11689,8 +11775,8 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c:2224:13: note: in expansion of macro 'CORE_LOGF_X' - 2224 | CORE_LOGF_X(21, eLOG_Warning, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7260:13: note: in expansion of macro 'CORE_LOGF_X' + 7260 | CORE_LOGF_X(69, eLOG_Error, | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ @@ -11701,27 +11787,27 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:155:5: note: in expansion of macro 'DO_CORE_LOG' + 155 | DO_CORE_LOG(0, 0, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:6805:17: note: in expansion of macro 'CORE_LOGF_X' - 6805 | CORE_LOGF_X(59, eLOG_Warning, - | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c:1890:21: note: in expansion of macro 'CORE_LOG' + 1890 | CORE_LOG(eLOG_Warning, + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' 224 | _mess.func = CORE_CURRENT_FUNCTION; \ | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:6814:17: note: in expansion of macro 'CORE_LOGF_X' - 6814 | CORE_LOGF_X(60, eLOG_Warning, - | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:167:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 167 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, 0, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c:1913:13: note: in expansion of macro 'CORE_LOGF_ERRNO_X' + 1913 | CORE_LOGF_ERRNO_X(11, eLOG_Error, error, + | ^~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_servicep.h:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_service_connector.c:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:91:31: warning: ISO C restricts enumerator values to range of 'int' before C2X [-Wpedantic] @@ -11730,7 +11816,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:92:31: warning: ISO C restricts enumerator values to range of 'int' before C2X [-Wpedantic] 92 | fSERV_Promiscuous = 0xF8000000 /**< Evrthng and the kitchen sink */ | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c: In function 's_VT_Write': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -11743,9 +11828,10 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c:2481:9: note: in expansion of macro 'CORE_LOGF_X' - 2481 | CORE_LOGF_X(24, eLOG_Error, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7270:9: note: in expansion of macro 'CORE_LOGF_X' + 7270 | CORE_LOGF_X(70, eLOG_Error, | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'SOCK_Abort': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -11758,8 +11844,8 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:6824:13: note: in expansion of macro 'CORE_LOGF_X' - 6824 | CORE_LOGF_X(61, eLOG_Warning, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c:1960:13: note: in expansion of macro 'CORE_LOGF_X' + 1960 | CORE_LOGF_X(19, eLOG_Warning, | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ @@ -11773,10 +11859,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:6834:9: note: in expansion of macro 'CORE_LOGF_X' - 6834 | CORE_LOGF_X(62, eLOG_Error, - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'SOCK_SetTimeout': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c:1965:13: note: in expansion of macro 'CORE_LOGF_X' + 1965 | CORE_LOGF_X(12, err && !(uuu->flags & fHTTP_SuppressMessages) + | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -11789,10 +11874,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:6969:9: note: in expansion of macro 'CORE_LOGF_X' - 6969 | CORE_LOGF_X(63, eLOG_Error, - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'SOCK_GetTimeout': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c:1976:17: note: in expansion of macro 'CORE_LOGF_X' + 1976 | CORE_LOGF_X(13, eLOG_Error, + | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -11805,10 +11889,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7010:9: note: in expansion of macro 'CORE_LOGF_X' - 7010 | CORE_LOGF_X(64, eLOG_Error, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7289:9: note: in expansion of macro 'CORE_LOGF_X' + 7289 | CORE_LOGF_X(71, eLOG_Warning, | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'SOCK_Read': In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:62, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_service_connector.c:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_service_connector.c: In function 's_OpenDispatcher': @@ -11840,36 +11923,6 @@ | | | | int * unsigned int * | %n -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7052:13: note: in expansion of macro 'CORE_LOGF_X' - 7052 | CORE_LOGF_X(65, eLOG_Error, - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7062:9: note: in expansion of macro 'CORE_LOGF_X' - 7062 | CORE_LOGF_X(66, eLOG_Error, - | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_service_connector.c: In function 's_Open': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ @@ -11901,22 +11954,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_service_connector.c:973:13: note: in expansion of macro 'CORE_LOGF_X' 973 | CORE_LOGF_X(9, eLOG_Warning, | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'SOCK_ReadLine': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7096:9: note: in expansion of macro 'CORE_LOGF_X' - 7096 | CORE_LOGF_X(125, eLOG_Error, - | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_service_connector.c: In function 's_VT_Open': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ @@ -11948,23 +11985,21 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_service_connector.c:1178:9: note: in expansion of macro 'CORE_LOGF_X' 1178 | CORE_LOGF_X(10, eLOG_Error, | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'SOCK_Pushback': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' 224 | _mess.func = CORE_CURRENT_FUNCTION; \ | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:247:5: note: in expansion of macro 'DO_CORE_LOG_X' + 247 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, data, size) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7176:9: note: in expansion of macro 'CORE_LOGF_X' - 7176 | CORE_LOGF_X(67, eLOG_Error, - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'SOCK_Write': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:199:5: note: in expansion of macro 'DO_CORE_LOG_DATA' + 199 | DO_CORE_LOG_DATA(NCBI_C_ERRCODE_X, subcode, level, data, size, \ + | ^~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c:1984:17: note: in expansion of macro 'CORE_DATAF_X' + 1984 | CORE_DATAF_X(14, eLOG_Note, s, n, + | ^~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -11977,9 +12012,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7233:17: note: in expansion of macro 'CORE_LOGF_X' - 7233 | CORE_LOGF_X(68, eLOG_Error, - | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c:1993:13: note: in expansion of macro 'CORE_LOGF_X' + 1993 | CORE_LOGF_X(15, eLOG_Error, + | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -11992,17 +12027,15 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7260:13: note: in expansion of macro 'CORE_LOGF_X' - 7260 | CORE_LOGF_X(69, eLOG_Error, - | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7296:9: note: in expansion of macro 'CORE_LOGF_X' + 7296 | CORE_LOGF_X(72, eLOG_Error, + | ^~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_servicep.h:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_ftp_connector.c:51: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:91:31: warning: ISO C restricts enumerator values to range of 'int' before C2X [-Wpedantic] 91 | fSERV_IncludePrivate = 0x80000000, | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:92:31: warning: ISO C restricts enumerator values to range of 'int' before C2X [-Wpedantic] - 92 | fSERV_Promiscuous = 0xF8000000 /**< Evrthng and the kitchen sink */ - | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c: In function 's_Read': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -12015,10 +12048,13 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7270:9: note: in expansion of macro 'CORE_LOGF_X' - 7270 | CORE_LOGF_X(70, eLOG_Error, - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'SOCK_Abort': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c:2176:17: note: in expansion of macro 'CORE_LOGF_X' + 2176 | CORE_LOGF_X(16, eLOG_Error, + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:92:31: warning: ISO C restricts enumerator values to range of 'int' before C2X [-Wpedantic] + 92 | fSERV_Promiscuous = 0xF8000000 /**< Evrthng and the kitchen sink */ + | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'SOCK_GetOSHandleEx': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -12031,17 +12067,10 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7289:9: note: in expansion of macro 'CORE_LOGF_X' - 7289 | CORE_LOGF_X(71, eLOG_Warning, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7443:9: note: in expansion of macro 'CORE_LOGF_X' + 7443 | CORE_LOGF_X(73, eLOG_Error, | ^~~~~~~~~~~ -le.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_memory_connector.c -o ncbi_memory_connector.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_service_connector.c -o ncbi_service_connector.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_ftp_connector.c -o ncbi_ftp_connector.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_version.c -o ncbi_version.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_iprange.c -o ncbi_iprange.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /buildIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:62, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_ftp_connector.c:50: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_ftp_connector.c: In function 'x_FTPCloseData': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'SOCK_SetCork': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -12054,9 +12083,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_ftp_connector.c:148:13: note: in expansion of macro 'CORE_LOGF_X' - 148 | CORE_LOGF_X(7, eLOG_Error, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c:2224:13: note: in expansion of macro 'CORE_LOGF_X' + 2224 | CORE_LOGF_X(21, eLOG_Warning, | ^~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:62, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_ftp_connector.c:50: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_ftp_connector.c: In function 'x_FTPCloseData': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -12069,9 +12101,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7296:9: note: in expansion of macro 'CORE_LOGF_X' - 7296 | CORE_LOGF_X(72, eLOG_Error, - | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_ftp_connector.c:148:13: note: in expansion of macro 'CORE_LOGF_X' + 148 | CORE_LOGF_X(7, eLOG_Error, + | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -12180,7 +12212,7 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_ftp_connector.c:618:9: note: in expansion of macro 'CORE_LOGF_X' 618 | CORE_LOGF_X(3, eLOG_Trace, | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'SOCK_GetOSHandleEx': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c: In function 's_VT_Write': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -12193,20 +12225,10 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7443:9: note: in expansion of macro 'CORE_LOGF_X' - 7443 | CORE_LOGF_X(73, eLOG_Error, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c:2481:9: note: in expansion of macro 'CORE_LOGF_X' + 2481 | CORE_LOGF_X(24, eLOG_Error, | ^~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_servicep.h:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lb.h:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_local.c:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:91:31: warning: ISO C restricts enumerator values to range of 'int' before C2X [-Wpedantic] - 91 | fSERV_IncludePrivate = 0x80000000, - | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:92:31: warning: ISO C restricts enumerator values to range of 'int' before C2X [-Wpedantic] - 92 | fSERV_Promiscuous = 0xF8000000 /**< Evrthng and the kitchen sink */ - | ^~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_ftp_connector.c: In function 'x_FTPPassive': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'SOCK_SetCork': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -12219,9 +12241,10 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7505:9: note: in expansion of macro 'CORE_LOGF_X' - 7505 | CORE_LOGF_X(158, eLOG_Warning, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_ftp_connector.c:976:9: note: in expansion of macro 'CORE_LOGF_X' + 976 | CORE_LOGF_X(2, eLOG_Error, | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_ftp_connector.c: In function 'x_FTPXfer': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -12234,10 +12257,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_ftp_connector.c:976:9: note: in expansion of macro 'CORE_LOGF_X' - 976 | CORE_LOGF_X(2, eLOG_Error, - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_ftp_connector.c: In function 'x_FTPXfer': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_ftp_connector.c:1138:21: note: in expansion of macro 'CORE_LOGF_X' + 1138 | CORE_LOGF_X(5, eLOG_Error, + | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -12250,9 +12272,10 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_ftp_connector.c:1138:21: note: in expansion of macro 'CORE_LOGF_X' - 1138 | CORE_LOGF_X(5, eLOG_Error, - | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7505:9: note: in expansion of macro 'CORE_LOGF_X' + 7505 | CORE_LOGF_X(158, eLOG_Warning, + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_ftp_connector.c: In function 's_FTPPollCntl': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -12265,25 +12288,26 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7512:9: note: in expansion of macro 'CORE_LOGF_X' - 7512 | CORE_LOGF_X(159, eLOG_Error, - | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_ftp_connector.c:1668:13: note: in expansion of macro 'CORE_LOGF_X' + 1668 | CORE_LOGF_X(12, xxx->data ? eLOG_Error : eLOG_Warning, + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_ftp_connector.c: In function 's_VT_Open': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' 224 | _mess.func = CORE_CURRENT_FUNCTION; \ | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7525:9: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 7525 | CORE_LOGF_ERRNO_EXX(160, eLOG_Warning, - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'SOCK_DisableOSSendDelay': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_ftp_connector.c:1939:9: note: in expansion of macro 'CORE_LOGF_X' + 1939 | CORE_LOGF_X(13, eLOG_Error, + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_ftp_connector.c: In function 's_VT_Write': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -12296,10 +12320,10 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7547:9: note: in expansion of macro 'CORE_LOGF_X' - 7547 | CORE_LOGF_X(156, eLOG_Warning, - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_ftp_connector.c: In function 's_FTPPollCntl': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_ftp_connector.c:2014:17: note: in expansion of macro 'CORE_LOGF_X' + 2014 | CORE_LOGF_X(6, eLOG_Error, + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_ftp_connector.c: In function 's_CreateConnector': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -12309,12 +12333,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:155:5: note: in expansion of macro 'DO_CORE_LOG' + 155 | DO_CORE_LOG(0, 0, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_ftp_connector.c:1668:13: note: in expansion of macro 'CORE_LOGF_X' - 1668 | CORE_LOGF_X(12, xxx->data ? eLOG_Error : eLOG_Warning, - | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_ftp_connector.c:2328:9: note: in expansion of macro 'CORE_LOG' + 2328 | CORE_LOG(eLOG_Critical, "fFTP_UseProxy not yet implemented"); + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -12327,8 +12351,8 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7554:9: note: in expansion of macro 'CORE_LOGF_X' - 7554 | CORE_LOGF_X(157, eLOG_Error, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7512:9: note: in expansion of macro 'CORE_LOGF_X' + 7512 | CORE_LOGF_X(159, eLOG_Error, | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ @@ -12342,11 +12366,10 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7567:9: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 7567 | CORE_LOGF_ERRNO_EXX(75, eLOG_Warning, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7525:9: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 7525 | CORE_LOGF_ERRNO_EXX(160, eLOG_Warning, | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'DSOCK_CreateEx': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_ftp_connector.c: In function 's_VT_Open': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'SOCK_DisableOSSendDelay': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -12359,8 +12382,8 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_ftp_connector.c:1939:9: note: in expansion of macro 'CORE_LOGF_X' - 1939 | CORE_LOGF_X(13, eLOG_Error, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7547:9: note: in expansion of macro 'CORE_LOGF_X' + 7547 | CORE_LOGF_X(156, eLOG_Warning, | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ @@ -12368,32 +12391,61 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' 224 | _mess.func = CORE_CURRENT_FUNCTION; \ | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7554:9: note: in expansion of macro 'CORE_LOGF_X' + 7554 | CORE_LOGF_X(157, eLOG_Error, + | ^~~~~~~~~~~ +le.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_memory_connector.c -o ncbi_memory_connector.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_service_connector.c -o ncbi_service_connector.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_ftp_connector.c -o ncbi_ftp_connector.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_version.c -o ncbi_version.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_iprange.c -o ncbi_iprange.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) | ^~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7618:9: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 7618 | CORE_LOGF_ERRNO_EXX(76, eLOG_Error, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7567:9: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 7567 | CORE_LOGF_ERRNO_EXX(75, eLOG_Warning, | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'DSOCK_Bind': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_ftp_connector.c: In function 's_VT_Write': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'DSOCK_CreateEx': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' 224 | _mess.func = CORE_CURRENT_FUNCTION; \ | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_ftp_connector.c:2014:17: note: in expansion of macro 'CORE_LOGF_X' - 2014 | CORE_LOGF_X(6, eLOG_Error, - | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7618:9: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 7618 | CORE_LOGF_ERRNO_EXX(76, eLOG_Error, + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'DSOCK_Bind': +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_servicep.h:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lb.h:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_local.c:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:91:31: warning: ISO C restricts enumerator values to range of 'int' before C2X [-Wpedantic] + 91 | fSERV_IncludePrivate = 0x80000000, + | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:92:31: warning: ISO C restricts enumerator values to range of 'int' before C2X [-Wpedantic] + 92 | fSERV_Promiscuous = 0xF8000000 /**< Evrthng and the kitchen sink */ + | ^~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -12424,7 +12476,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7745:9: note: in expansion of macro 'CORE_LOGF_X' 7745 | CORE_LOGF_X(78, eLOG_Error, | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_ftp_connector.c: In function 's_CreateConnector': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -12440,22 +12491,16 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7763:9: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' 7763 | CORE_LOGF_ERRNO_EXX(80, error != SOCK_EADDRINUSE | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:155:5: note: in expansion of macro 'DO_CORE_LOG' - 155 | DO_CORE_LOG(0, 0, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_ftp_connector.c:2328:9: note: in expansion of macro 'CORE_LOG' - 2328 | CORE_LOG(eLOG_Critical, "fFTP_UseProxy not yet implemented"); - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] +/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/composition_adjustment/optimize_target_freq.c -o optimize_target_freq.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/composition_adjustment/redo_alignment.c -o redo_alignment.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/composition_adjustment/smith_waterman.c -o smith_waterman.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/composition_adjustment/unified_pvalues.c -o unified_pvalues.o +/bin/rm -f libcomposition_adjustment.so .libcomposition_adjustment.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libcomposition_adjustment.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC compo_heap.o compo_mode_condition.o composition_adjustment.o matrix_frequency_data.o nlm_linear_algebra.o optimize_target_freq.o redo_alignment.o smith_waterman.o unified_pvalues.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libcomposition_adjustment.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libcomposition_adjustment.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libcomposition_adjustment.so +/bin/ln -f .composition_adjustment.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.composition_adjustment.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/al/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' @@ -12471,6 +12516,12 @@ 7779 | CORE_LOGF_ERRNO_EXX(114, eLOG_Error, | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'DSOCK_Connect': +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_servicep.h:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_dispd.h:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_dispd.c:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:91:31: warning: ISO C restricts enumerator values to range of 'int' before C2X [-Wpedantic] + 91 | fSERV_IncludePrivate = 0x80000000, + | ^~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -12486,6 +12537,10 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7808:9: note: in expansion of macro 'CORE_LOGF_X' 7808 | CORE_LOGF_X(82, eLOG_Error, | ^~~~~~~~~~~ +go/blast/composition_adjustment' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:92:31: warning: ISO C restricts enumerator values to range of 'int' before C2X [-Wpedantic] + 92 | fSERV_Promiscuous = 0xF8000000 /**< Evrthng and the kitchen sink */ + | ^~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -12546,6 +12601,7 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7876:9: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' 7876 | CORE_LOGF_ERRNO_EXX(85, eLOG_Error, | ^~~~~~~~~~~~~~~~~~~ +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/composition_adjustment' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'DSOCK_WaitMsg': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ @@ -12562,6 +12618,24 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7904:9: note: in expansion of macro 'CORE_LOGF_X' 7904 | CORE_LOGF_X(96, eLOG_Error, | ^~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:62, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_dispd.c:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_dispd.c: In function 's_Resolve': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_dispd.c:205:9: note: in expansion of macro 'CORE_LOGF_X' + 205 | CORE_LOGF_X(5, eLOG_Error, + | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -12701,15 +12775,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:8092:9: note: in expansion of macro 'CORE_LOGF_X' 8092 | CORE_LOGF_X(101, eLOG_Error, | ^~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_servicep.h:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_dispd.h:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_dispd.c:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:91:31: warning: ISO C restricts enumerator values to range of 'int' before C2X [-Wpedantic] - 91 | fSERV_IncludePrivate = 0x80000000, - | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:92:31: warning: ISO C restricts enumerator values to range of 'int' before C2X [-Wpedantic] - 92 | fSERV_Promiscuous = 0xF8000000 /**< Evrthng and the kitchen sink */ - | ^~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -12756,9 +12821,8 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:8285:9: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' 8285 | CORE_LOGF_ERRNO_EXX(74, eLOG_Warning, | ^~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:62, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_dispd.c:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_dispd.c: In function 's_Resolve': +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'SOCK_SetupSSLInternal': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -12768,12 +12832,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:159:5: note: in expansion of macro 'DO_CORE_LOG' + 159 | DO_CORE_LOG(0, 0, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_dispd.c:205:9: note: in expansion of macro 'CORE_LOGF_X' - 205 | CORE_LOGF_X(5, eLOG_Error, - | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:8674:13: note: in expansion of macro 'CORE_LOGF' + 8674 | CORE_LOGF(eLOG_Critical, ("%s reset SSL while it is in use",verb)); + | ^~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_servicep.h:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbosp.h:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:37: @@ -12783,25 +12847,19 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:92:31: warning: ISO C restricts enumerator values to range of 'int' before C2X [-Wpedantic] 92 | fSERV_Promiscuous = 0xF8000000 /**< Evrthng and the kitchen sink */ | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'SOCK_SetupSSLInternal': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:159:5: note: in expansion of macro 'DO_CORE_LOG' - 159 | DO_CORE_LOG(0, 0, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:8674:13: note: in expansion of macro 'CORE_LOGF' - 8674 | CORE_LOGF(eLOG_Critical, ("%s reset SSL while it is in use",verb)); - | ^~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_servicep.h:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lb.h:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:91:31: warning: ISO C restricts enumerator values to range of 'int' before C2X [-Wpedantic] + 91 | fSERV_IncludePrivate = 0x80000000, + | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:92:31: warning: ISO C restricts enumerator values to range of 'int' before C2X [-Wpedantic] + 92 | fSERV_Promiscuous = 0xF8000000 /**< Evrthng and the kitchen sink */ + | ^~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:62, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c: In function 'g_LBOS_StringConcat': + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_once.h:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c: In function 's_SetEndpoint': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -12811,13 +12869,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' - 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:431:9: note: in expansion of macro 'CORE_LOG_X' - 431 | CORE_LOG_X(eLBOS_MemAlloc, eLOG_Critical, - | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c: In function 'g_LBOS_StringNConcat': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:203:9: note: in expansion of macro 'CORE_LOGF_X' + 203 | CORE_LOGF_X(eLSub_BadData, eLOG_Error, + | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -12830,10 +12887,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:456:9: note: in expansion of macro 'CORE_LOG_X' - 456 | CORE_LOG_X(eLBOS_MemAlloc, eLOG_Critical, - | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c: In function 'g_LBOS_RegGet': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:210:13: note: in expansion of macro 'CORE_LOG_X' + 210 | CORE_LOG_X(eLSub_BadData, eLOG_Error, + | ^~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -12846,9 +12902,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:480:9: note: in expansion of macro 'CORE_LOG_X' - 480 | CORE_LOG_X(eLBOS_MemAlloc, eLOG_Critical, - | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:221:13: note: in expansion of macro 'CORE_LOG_X' + 221 | CORE_LOG_X(eLSub_BadData, eLOG_Error, + | ^~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -12861,25 +12917,10 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:494:13: note: in expansion of macro 'CORE_LOG_X' - 494 | CORE_LOG_X(eLBOS_MemAlloc, eLOG_Warning, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:232:13: note: in expansion of macro 'CORE_LOG_X' + 232 | CORE_LOG_X(eLSub_BadData, eLOG_Error, | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c: In function 'g_LBOS_GetLBOSAddressEx': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:155:5: note: in expansion of macro 'DO_CORE_LOG' - 155 | DO_CORE_LOG(0, 0, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:562:5: note: in expansion of macro 'CORE_LOG' - 562 | CORE_LOG(eLOG_Trace, "Getting LBOS addresses..."); - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c: In function 's_EndpointFromNetInfo': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -12892,8 +12933,8 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:576:17: note: in expansion of macro 'CORE_LOG_X' - 576 | CORE_LOG_X(1, eLOG_Error, "Use of custom LBOS address " +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:271:17: note: in expansion of macro 'CORE_LOG_X' + 271 | CORE_LOG_X(eLSub_BadData, eLOG_Warning, | ^~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ @@ -12901,76 +12942,16 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' 224 | _mess.func = CORE_CURRENT_FUNCTION; \ | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:163:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 163 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, 0, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:583:17: note: in expansion of macro 'CORE_LOG_ERRNO_X' - 583 | CORE_LOG_ERRNO_X(1, eLOG_Warning, errno, - | ^~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:591:17: note: in expansion of macro 'CORE_LOGF_X' - 591 | CORE_LOGF_X(1, eLOG_Warning, - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' + 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:602:17: note: in expansion of macro 'CORE_LOGF_X' - 602 | CORE_LOGF_X(1, eLOG_Note, - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c: In function 's_LBOS_ReadLbosresolver': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:175:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 175 | DO_CORE_LOG_ERRNO(0, 0, level, error, 0, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:721:9: note: in expansion of macro 'CORE_LOGF_ERRNO' - 721 | CORE_LOGF_ERRNO(eLOG_Warning, errno, - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:175:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 175 | DO_CORE_LOG_ERRNO(0, 0, level, error, 0, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:730:9: note: in expansion of macro 'CORE_LOGF_ERRNO' - 730 | CORE_LOGF_ERRNO(eLOG_Warning, errno, - | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:278:9: note: in expansion of macro 'CORE_LOG_X' + 278 | CORE_LOG_X(eLSub_BadData, eLOG_Error, + | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c: In function 's_EndpointFromRegistry': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -12980,13 +12961,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:159:5: note: in expansion of macro 'DO_CORE_LOG' - 159 | DO_CORE_LOG(0, 0, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' + 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:739:9: note: in expansion of macro 'CORE_LOGF' - 739 | CORE_LOGF(eLOG_Warning, - | ^~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c: In function 's_LBOS_ConnectURL': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:301:9: note: in expansion of macro 'CORE_LOG_X' + 301 | CORE_LOG_X(eLSub_Alloc, eLOG_Critical, + | ^~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -12996,12 +12976,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:159:5: note: in expansion of macro 'DO_CORE_LOG' - 159 | DO_CORE_LOG(0, 0, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' + 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:823:5: note: in expansion of macro 'CORE_LOGF' - 823 | CORE_LOGF(eLOG_Trace, ("Parsing URL \"%s\"", url)); - | ^~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:310:9: note: in expansion of macro 'CORE_LOG_X' + 310 | CORE_LOG_X(eLSub_Alloc, eLOG_Critical, + | ^~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -13011,12 +12991,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:155:5: note: in expansion of macro 'DO_CORE_LOG' - 155 | DO_CORE_LOG(0, 0, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' + 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:825:9: note: in expansion of macro 'CORE_LOG' - 825 | CORE_LOG(eLOG_Warning, "Cannot parse URL"); - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:319:9: note: in expansion of macro 'CORE_LOG_X' + 319 | CORE_LOG_X(eLSub_Alloc, eLOG_Critical, + | ^~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -13026,12 +13006,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:159:5: note: in expansion of macro 'DO_CORE_LOG' - 159 | DO_CORE_LOG(0, 0, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' + 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:828:5: note: in expansion of macro 'CORE_LOGF' - 828 | CORE_LOGF(eLOG_Trace, ("Creating HTTP%s connector", - | ^~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:328:9: note: in expansion of macro 'CORE_LOG_X' + 328 | CORE_LOG_X(eLSub_Alloc, eLOG_Critical, + | ^~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -13041,12 +13021,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:155:5: note: in expansion of macro 'DO_CORE_LOG' - 155 | DO_CORE_LOG(0, 0, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' + 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:835:9: note: in expansion of macro 'CORE_LOG' - 835 | CORE_LOG(eLOG_Warning, "Cannot create HTTP connector"); - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:337:9: note: in expansion of macro 'CORE_LOG_X' + 337 | CORE_LOG_X(eLSub_Alloc, eLOG_Critical, + | ^~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -13056,12 +13036,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:155:5: note: in expansion of macro 'DO_CORE_LOG' - 155 | DO_CORE_LOG(0, 0, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' + 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:838:5: note: in expansion of macro 'CORE_LOG' - 838 | CORE_LOG(eLOG_Trace, "Creating connection"); - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:350:13: note: in expansion of macro 'CORE_LOG_X' + 350 | CORE_LOG_X(eLSub_BadData, eLOG_Warning, + | ^~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -13071,13 +13051,13 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:155:5: note: in expansion of macro 'DO_CORE_LOG' - 155 | DO_CORE_LOG(0, 0, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' + 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:840:9: note: in expansion of macro 'CORE_LOG' - 840 | CORE_LOG(eLOG_Warning, "Cannot create connection"); - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c: In function 's_LBOS_UrlReadAll': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:356:9: note: in expansion of macro 'CORE_LOG_X' + 356 | CORE_LOG_X(eLSub_BadData, eLOG_Error, + | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c: In function 's_EndpointFromNamerd': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -13087,36 +13067,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:155:5: note: in expansion of macro 'DO_CORE_LOG' - 155 | DO_CORE_LOG(0, 0, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:899:9: note: in expansion of macro 'CORE_LOG' - 899 | CORE_LOG(eLOG_Critical, "s_LBOS_UrlReadAll: No RAM. " - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/composition_adjustment/optimize_target_freq.c -o optimize_target_freq.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/composition_adjustment/redo_alignment.c -o redo_alignment.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/composition_adjustment/smith_waterman.c -o smith_waterman.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/composition_adjustment/unified_pvalues.c -o unified_pvalues.o -/bin/rm -f libcomposition_adjustment.so .libcomposition_adjustment.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libcomposition_adjustment.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC compo_heap.o compo_mode_condition.o composition_adjustment.o matrix_frequency_data.o nlm_linear_algebra.o optimize_target_freq.o redo_alignment.o smith_waterman.o unified_pvalues.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libcomposition_adjustment.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libcomposition_adjustment.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libcomposition_adjustment.so -/bin/ln -f .composition_adjustment.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.composition_adjustment.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/al/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:159:5: note: in expansion of macro 'DO_CORE_LOG' - 159 | DO_CORE_LOG(0, 0, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' + 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:911:13: note: in expansion of macro 'CORE_LOGF' - 911 | CORE_LOGF(eLOG_Critical, ("s_LBOS_UrlReadAll: LBOS returned " - | ^~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:381:9: note: in expansion of macro 'CORE_LOG_X' + 381 | CORE_LOG_X(eLSub_Alloc, eLOG_Critical, + | ^~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -13126,12 +13082,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:155:5: note: in expansion of macro 'DO_CORE_LOG' - 155 | DO_CORE_LOG(0, 0, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' + 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:939:17: note: in expansion of macro 'CORE_LOG' - 939 | CORE_LOG(eLOG_Warning, "s_LBOS_UrlReadAll: Buffer " - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:390:9: note: in expansion of macro 'CORE_LOG_X' + 390 | CORE_LOG_X(eLSub_Alloc, eLOG_Critical, + | ^~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -13141,13 +13097,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:155:5: note: in expansion of macro 'DO_CORE_LOG' - 155 | DO_CORE_LOG(0, 0, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' + 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:953:9: note: in expansion of macro 'CORE_LOG' - 953 | CORE_LOG(eLOG_Warning, "s_LBOS_UrlReadAll: Buffer shrink error, using " - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c: In function 's_LBOS_ResolveIPPort': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:401:9: note: in expansion of macro 'CORE_LOG_X' + 401 | CORE_LOG_X(eLSub_Alloc, eLOG_Critical, + | ^~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -13157,12 +13112,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:155:5: note: in expansion of macro 'DO_CORE_LOG' - 155 | DO_CORE_LOG(0, 0, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' + 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:985:9: note: in expansion of macro 'CORE_LOG' - 985 | CORE_LOG(eLOG_Critical, "s_LBOS_ResolveIPPort: No RAM. " - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:410:9: note: in expansion of macro 'CORE_LOG_X' + 410 | CORE_LOG_X(eLSub_Alloc, eLOG_Critical, + | ^~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -13172,14 +13127,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:155:5: note: in expansion of macro 'DO_CORE_LOG' - 155 | DO_CORE_LOG(0, 0, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' + 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:1044:9: note: in expansion of macro 'CORE_LOG' - 1044 | CORE_LOG(eLOG_Critical, "s_LBOS_ResolveIPPort: No RAM. " - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c: In function 's_LBOS_FillCandidates': -go/blast/composition_adjustment' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:418:9: note: in expansion of macro 'CORE_LOG_X' + 418 | CORE_LOG_X(eLSub_Logic, eLOG_Critical, + | ^~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -13189,12 +13142,13 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:1194:5: note: in expansion of macro 'CORE_LOGF_X' - 1194 | CORE_LOGF_X(1, eLOG_Trace, ("Trying to find servers of \"%s\" with " +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' + 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:428:9: note: in expansion of macro 'CORE_LOG_X' + 428 | CORE_LOG_X(eLSub_Alloc, eLOG_Critical, + | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c: In function 's_Resolve': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -13207,8 +13161,8 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:1200:9: note: in expansion of macro 'CORE_LOGF_X' - 1200 | CORE_LOGF_X(1, eLOG_Trace, ("No servers of \"%s\" found by LBOS", +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:470:9: note: in expansion of macro 'CORE_LOGF_X' + 470 | CORE_LOGF_X(eLSub_Alloc, eLOG_Critical, | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ @@ -13219,12 +13173,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:1205:5: note: in expansion of macro 'CORE_LOGF_X' - 1205 | CORE_LOGF_X(1, eLOG_Trace, ("Found %u servers of \"%s\" with " +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' + 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:496:9: note: in expansion of macro 'CORE_LOG_X' + 496 | CORE_LOG_X(eLSub_Alloc, eLOG_Critical, + | ^~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -13237,116 +13191,10 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:1218:13: note: in expansion of macro 'CORE_LOGF_X' - 1218 | CORE_LOGF_X(1, eLOG_Warning, - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c: In function 's_LBOS_CheckAnnounceArgs': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:155:5: note: in expansion of macro 'DO_CORE_LOG' - 155 | DO_CORE_LOG(0, 0, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:1248:9: note: in expansion of macro 'CORE_LOG' - 1248 | CORE_LOG(eLOG_Critical, "Error with announcement, " - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:155:5: note: in expansion of macro 'DO_CORE_LOG' - 155 | DO_CORE_LOG(0, 0, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:1255:9: note: in expansion of macro 'CORE_LOG' - 1255 | CORE_LOG(eLOG_Critical, "Error with announcement, missing http:// or " - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:155:5: note: in expansion of macro 'DO_CORE_LOG' - 155 | DO_CORE_LOG(0, 0, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:1265:17: note: in expansion of macro 'CORE_LOG' - 1265 | CORE_LOG(eLOG_Critical, "Error with announcement, " - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:155:5: note: in expansion of macro 'DO_CORE_LOG' - 155 | DO_CORE_LOG(0, 0, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:1275:9: note: in expansion of macro 'CORE_LOG' - 1275 | CORE_LOG(eLOG_Critical, "Error with announcement, invalid port."); - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:155:5: note: in expansion of macro 'DO_CORE_LOG' - 155 | DO_CORE_LOG(0, 0, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:1279:9: note: in expansion of macro 'CORE_LOG' - 1279 | CORE_LOG(eLOG_Critical, "Error with announcement, " - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:155:5: note: in expansion of macro 'DO_CORE_LOG' - 155 | DO_CORE_LOG(0, 0, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:1284:9: note: in expansion of macro 'CORE_LOG' - 1284 | CORE_LOG(eLOG_Critical, "Error with announcement, " - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:155:5: note: in expansion of macro 'DO_CORE_LOG' - 155 | DO_CORE_LOG(0, 0, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:1289:9: note: in expansion of macro 'CORE_LOG' - 1289 | CORE_LOG(eLOG_Critical, "Error with announcement, " - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c: In function 's_LBOS_CheckDeannounceArgs': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:509:9: note: in expansion of macro 'CORE_LOGF_X' + 509 | CORE_LOGF_X(eLSub_BadData, eLOG_Warning, + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c: In function 's_GetNextInfo': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -13356,12 +13204,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:155:5: note: in expansion of macro 'DO_CORE_LOG' - 155 | DO_CORE_LOG(0, 0, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' + 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:1303:9: note: in expansion of macro 'CORE_LOG' - 1303 | CORE_LOG(eLOG_Critical, "Invalid argument passed for de-announcement, " - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:532:9: note: in expansion of macro 'CORE_LOG_X' + 532 | CORE_LOG_X(eLSub_Logic, eLOG_Critical, + | ^~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -13371,12 +13219,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:155:5: note: in expansion of macro 'DO_CORE_LOG' - 155 | DO_CORE_LOG(0, 0, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' + 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:1309:9: note: in expansion of macro 'CORE_LOG' - 1309 | CORE_LOG(eLOG_Critical, "Invalid argument passed for de-announcement, " - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:538:9: note: in expansion of macro 'CORE_LOG_X' + 538 | CORE_LOG_X(eLSub_Logic, eLOG_Critical, + | ^~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -13386,12 +13234,13 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:155:5: note: in expansion of macro 'DO_CORE_LOG' - 155 | DO_CORE_LOG(0, 0, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' + 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:1314:9: note: in expansion of macro 'CORE_LOG' - 1314 | CORE_LOG(eLOG_Critical, "Invalid argument passed for de-announcement, " - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:563:13: note: in expansion of macro 'CORE_LOG_X' + 563 | CORE_LOG_X(eLSub_BadData, eLOG_Warning, + | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c: In function 'LINKERD_GetHttpProxy': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -13401,13 +13250,15 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:155:5: note: in expansion of macro 'DO_CORE_LOG' - 155 | DO_CORE_LOG(0, 0, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' + 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:1319:9: note: in expansion of macro 'CORE_LOG' - 1319 | CORE_LOG(eLOG_Critical, "Invalid argument passed for de-announcement, " - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c: In function 's_LBOS_Replace0000WithIP': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:626:9: note: in expansion of macro 'CORE_LOG_X' + 626 | CORE_LOG_X(eLSub_BadData, eLOG_Critical, + | ^~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:62, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c: In function 'g_LBOS_StringConcat': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -13417,12 +13268,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:155:5: note: in expansion of macro 'DO_CORE_LOG' - 155 | DO_CORE_LOG(0, 0, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' + 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:1404:9: note: in expansion of macro 'CORE_LOG' - 1404 | CORE_LOG(eLOG_Warning, "Failed memory allocation. Most likely, " - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:632:9: note: in expansion of macro 'CORE_LOG_X' + 632 | CORE_LOG_X(eLSub_BadData, eLOG_Critical, + | ^~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -13432,12 +13283,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:155:5: note: in expansion of macro 'DO_CORE_LOG' - 155 | DO_CORE_LOG(0, 0, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' + 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:1412:9: note: in expansion of macro 'CORE_LOG' - 1412 | CORE_LOG(eLOG_Warning, - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:431:9: note: in expansion of macro 'CORE_LOG_X' + 431 | CORE_LOG_X(eLBOS_MemAlloc, eLOG_Critical, + | ^~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -13447,13 +13298,13 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:155:5: note: in expansion of macro 'DO_CORE_LOG' - 155 | DO_CORE_LOG(0, 0, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' + 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:1419:9: note: in expansion of macro 'CORE_LOG' - 1419 | CORE_LOG(eLOG_Warning, - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c: In function 's_LBOS_ConstructData': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:638:9: note: in expansion of macro 'CORE_LOG_X' + 638 | CORE_LOG_X(eLSub_BadData, eLOG_Critical, + | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c: In function 'g_LBOS_StringNConcat': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -13466,10 +13317,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:1563:9: note: in expansion of macro 'CORE_LOG_X' - 1563 | CORE_LOG_X(1, eLOG_Error, "Could not allocate memory for LBOS mapper"); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:456:9: note: in expansion of macro 'CORE_LOG_X' + 456 | CORE_LOG_X(eLBOS_MemAlloc, eLOG_Critical, | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c: In function 's_LBOS_Initialize': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -13482,19 +13332,10 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:1638:9: note: in expansion of macro 'CORE_LOG_X' - 1638 | CORE_LOG_X(1, eLOG_Trace, "No DTAB in registry"); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:644:9: note: in expansion of macro 'CORE_LOG_X' + 644 | CORE_LOG_X(eLSub_BadData, eLOG_Critical, | ^~~~~~~~~~ -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/composition_adjustment' -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_servicep.h:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lb.h:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:91:31: warning: ISO C restricts enumerator values to range of 'int' before C2X [-Wpedantic] - 91 | fSERV_IncludePrivate = 0x80000000, - | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:92:31: warning: ISO C restricts enumerator values to range of 'int' before C2X [-Wpedantic] - 92 | fSERV_Promiscuous = 0xF8000000 /**< Evrthng and the kitchen sink */ - | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c: In function 'g_LBOS_RegGet': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -13504,12 +13345,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' + 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:1640:9: note: in expansion of macro 'CORE_LOGF_X' - 1640 | CORE_LOGF_X(1, eLOG_Trace, - | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:480:9: note: in expansion of macro 'CORE_LOG_X' + 480 | CORE_LOG_X(eLBOS_MemAlloc, eLOG_Critical, + | ^~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -13522,96 +13363,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:1654:9: note: in expansion of macro 'CORE_LOGF_X' - 1654 | CORE_LOGF_X(1, eLOG_Warning, - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c: In function 's_LBOS_ParseHeader': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:159:5: note: in expansion of macro 'DO_CORE_LOG' - 159 | DO_CORE_LOG(0, 0, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:1702:9: note: in expansion of macro 'CORE_LOGF' - 1702 | CORE_LOGF(eLOG_Critical, ("s_LBOS_UrlReadAll: LBOS returned status " - | ^~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c: In function 's_LBOS_Reset': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:155:5: note: in expansion of macro 'DO_CORE_LOG' - 155 | DO_CORE_LOG(0, 0, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:1765:17: note: in expansion of macro 'CORE_LOG' - 1765 | CORE_LOG(eLOG_Critical, "s_LBOS_Reset: No RAM. " - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c: In function 'SERV_LBOS_Open': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:155:5: note: in expansion of macro 'DO_CORE_LOG' - 155 | DO_CORE_LOG(0, 0, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:1868:5: note: in expansion of macro 'CORE_LOG' - 1868 | CORE_LOG(eLOG_Error, "LBOS is deprecated, consider using LBSMD instead."); - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:155:5: note: in expansion of macro 'DO_CORE_LOG' - 155 | DO_CORE_LOG(0, 0, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:1880:9: note: in expansion of macro 'CORE_LOG' - 1880 | CORE_LOG(eLOG_Warning, "Mask was provided instead of service name. " - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:155:5: note: in expansion of macro 'DO_CORE_LOG' - 155 | DO_CORE_LOG(0, 0, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:653:5: note: in expansion of macro 'CORE_LOGF_X' + 653 | CORE_LOGF_X(eLSub_Message, eLOG_Info, | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:1888:9: note: in expansion of macro 'CORE_LOG' - 1888 | CORE_LOG(eLOG_Warning, "\"iter->name\" is null, not able " - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_servicep.h:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lb.h:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_namerd.c:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:91:31: warning: ISO C restricts enumerator values to range of 'int' before C2X [-Wpedantic] - 91 | fSERV_IncludePrivate = 0x80000000, - | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:92:31: warning: ISO C restricts enumerator values to range of 'int' before C2X [-Wpedantic] - 92 | fSERV_Promiscuous = 0xF8000000 /**< Evrthng and the kitchen sink */ - | ^~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -13621,12 +13375,13 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:155:5: note: in expansion of macro 'DO_CORE_LOG' - 155 | DO_CORE_LOG(0, 0, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' + 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:1903:13: note: in expansion of macro 'CORE_LOG' - 1903 | CORE_LOG(eLOG_Warning, "Could not concatenate dbaf with service " - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:494:13: note: in expansion of macro 'CORE_LOG_X' + 494 | CORE_LOG_X(eLBOS_MemAlloc, eLOG_Warning, + | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c: In function 'SERV_LINKERD_Open': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -13636,12 +13391,13 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:155:5: note: in expansion of macro 'DO_CORE_LOG' - 155 | DO_CORE_LOG(0, 0, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' + 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:1918:9: note: in expansion of macro 'CORE_LOG' - 1918 | CORE_LOG(eLOG_Warning, - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:671:13: note: in expansion of macro 'CORE_LOG_X' + 671 | CORE_LOG_X(eLSub_Logic, eLOG_Critical, + | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c: In function 'g_LBOS_GetLBOSAddressEx': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -13651,17 +13407,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:155:5: note: in expansion of macro 'DO_CORE_LOG' - 155 | DO_CORE_LOG(0, 0, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' + 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:1932:9: note: in expansion of macro 'CORE_LOG' - 1932 | CORE_LOG(eLOG_Critical, - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c: In function 's_LBOS_Announce': -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:62, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_once.h:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c: In function 's_SetEndpoint': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:676:13: note: in expansion of macro 'CORE_LOG_X' + 676 | CORE_LOG_X(eLSub_Logic, eLOG_Critical, + | ^~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -13674,24 +13425,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:155:5: note: in expansion of macro 'DO_CORE_LOG' 155 | DO_CORE_LOG(0, 0, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:2047:9: note: in expansion of macro 'CORE_LOG' - 2047 | CORE_LOG(eLOG_Warning, "Announce failed. No LBOS found."); - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:159:5: note: in expansion of macro 'DO_CORE_LOG' - 159 | DO_CORE_LOG(0, 0, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:2052:9: note: in expansion of macro 'CORE_LOGF' - 2052 | CORE_LOGF(eLOG_Warning, ("Announce failed. " - | ^~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:562:5: note: in expansion of macro 'CORE_LOG' + 562 | CORE_LOG(eLOG_Trace, "Getting LBOS addresses..."); + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -13701,12 +13437,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:155:5: note: in expansion of macro 'DO_CORE_LOG' - 155 | DO_CORE_LOG(0, 0, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' + 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:2061:13: note: in expansion of macro 'CORE_LOG' - 2061 | CORE_LOG(eLOG_Warning, "Failed memory allocation. Most likely, " - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:684:13: note: in expansion of macro 'CORE_LOG_X' + 684 | CORE_LOG_X(eLSub_BadData, eLOG_Error, + | ^~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -13716,12 +13452,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:155:5: note: in expansion of macro 'DO_CORE_LOG' - 155 | DO_CORE_LOG(0, 0, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:2071:13: note: in expansion of macro 'CORE_LOG' - 2071 | CORE_LOG(eLOG_Warning, "g_LBOS_Announce: LBOS answered 200 OK, but " - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:695:13: note: in expansion of macro 'CORE_LOGF_X' + 695 | CORE_LOGF_X(eLSub_Logic, eLOG_Critical, + | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -13734,9 +13470,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:203:9: note: in expansion of macro 'CORE_LOGF_X' - 203 | CORE_LOGF_X(eLSub_BadData, eLOG_Error, - | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:702:13: note: in expansion of macro 'CORE_LOGF_X' + 702 | CORE_LOGF_X(eLSub_BadData, eLOG_Error, + | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -13749,8 +13485,8 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:210:13: note: in expansion of macro 'CORE_LOG_X' - 210 | CORE_LOG_X(eLSub_BadData, eLOG_Error, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:710:13: note: in expansion of macro 'CORE_LOG_X' + 710 | CORE_LOG_X(eLSub_BadData, eLOG_Error, | ^~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ @@ -13761,12 +13497,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:159:5: note: in expansion of macro 'DO_CORE_LOG' - 159 | DO_CORE_LOG(0, 0, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' + 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:2084:9: note: in expansion of macro 'CORE_LOGF' - 2084 | CORE_LOGF(eLOG_Warning, ("Announce failed. " - | ^~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:720:13: note: in expansion of macro 'CORE_LOG_X' + 720 | CORE_LOG_X(eLSub_Alloc, eLOG_Critical, + | ^~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -13779,8 +13515,8 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:221:13: note: in expansion of macro 'CORE_LOG_X' - 221 | CORE_LOG_X(eLSub_BadData, eLOG_Error, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:728:13: note: in expansion of macro 'CORE_LOG_X' + 728 | CORE_LOG_X(eLSub_Alloc, eLOG_Critical, "Couldn't clone net_info."); | ^~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ @@ -13794,11 +13530,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:232:13: note: in expansion of macro 'CORE_LOG_X' - 232 | CORE_LOG_X(eLSub_BadData, eLOG_Error, - | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c: In function 'LBOS_Announce': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c: In function 's_EndpointFromNetInfo': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:737:9: note: in expansion of macro 'CORE_LOG_X' + 737 | CORE_LOG_X(eLSub_BadData, eLOG_Error, + | ^~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -13811,9 +13545,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:271:17: note: in expansion of macro 'CORE_LOG_X' - 271 | CORE_LOG_X(eLSub_BadData, eLOG_Warning, - | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:745:9: note: in expansion of macro 'CORE_LOG_X' + 745 | CORE_LOG_X(eLSub_BadData, eLOG_Error, + | ^~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -13826,10 +13560,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:278:9: note: in expansion of macro 'CORE_LOG_X' - 278 | CORE_LOG_X(eLSub_BadData, eLOG_Error, - | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c: In function 's_EndpointFromRegistry': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:754:13: note: in expansion of macro 'CORE_LOG_X' + 754 | CORE_LOG_X(eLSub_BadData, eLOG_Error, + | ^~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -13842,9 +13575,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:301:9: note: in expansion of macro 'CORE_LOG_X' - 301 | CORE_LOG_X(eLSub_Alloc, eLOG_Critical, - | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:765:13: note: in expansion of macro 'CORE_LOG_X' + 765 | CORE_LOG_X(eLSub_BadData, eLOG_Error, + | ^~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -13857,8 +13590,8 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:310:9: note: in expansion of macro 'CORE_LOG_X' - 310 | CORE_LOG_X(eLSub_Alloc, eLOG_Critical, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:775:9: note: in expansion of macro 'CORE_LOG_X' + 775 | CORE_LOG_X(eLSub_BadData, eLOG_Error, "No endpoint data found."); | ^~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ @@ -13872,9 +13605,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:2150:13: note: in expansion of macro 'CORE_LOG_X' - 2150 | CORE_LOG_X(eLBOS_InvalidArgs, eLOG_Critical, - | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:795:17: note: in expansion of macro 'CORE_LOG_X' + 795 | CORE_LOG_X(eLSub_Message, eLOG_Info, + | ^~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -13887,9 +13620,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:319:9: note: in expansion of macro 'CORE_LOG_X' - 319 | CORE_LOG_X(eLSub_Alloc, eLOG_Critical, - | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:799:17: note: in expansion of macro 'CORE_LOG_X' + 799 | CORE_LOG_X(eLSub_Message, eLOG_Info, + | ^~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -13902,9 +13635,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:328:9: note: in expansion of macro 'CORE_LOG_X' - 328 | CORE_LOG_X(eLSub_Alloc, eLOG_Critical, - | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:805:17: note: in expansion of macro 'CORE_LOG_X' + 805 | CORE_LOG_X(eLSub_Message, eLOG_Info, + | ^~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -13917,10 +13650,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:337:9: note: in expansion of macro 'CORE_LOG_X' - 337 | CORE_LOG_X(eLSub_Alloc, eLOG_Critical, - | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c: In function 'LBOS_AnnounceFromRegistry': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:807:17: note: in expansion of macro 'CORE_LOG_X' + 807 | CORE_LOG_X(eLSub_BadData, eLOG_Error, + | ^~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -13930,12 +13662,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' - 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:350:13: note: in expansion of macro 'CORE_LOG_X' - 350 | CORE_LOG_X(eLSub_BadData, eLOG_Warning, - | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:819:13: note: in expansion of macro 'CORE_LOGF_X' + 819 | CORE_LOGF_X(eLSub_Logic, eLOG_Critical, + | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -13948,10 +13680,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:356:9: note: in expansion of macro 'CORE_LOG_X' - 356 | CORE_LOG_X(eLSub_BadData, eLOG_Error, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:826:9: note: in expansion of macro 'CORE_LOG_X' + 826 | CORE_LOG_X(eLSub_BadData, eLOG_Warning, "Unable to resolve endpoint."); | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c: In function 's_EndpointFromNamerd': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -13964,24 +13695,24 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:381:9: note: in expansion of macro 'CORE_LOG_X' - 381 | CORE_LOG_X(eLSub_Alloc, eLOG_Critical, - | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:576:17: note: in expansion of macro 'CORE_LOG_X' + 576 | CORE_LOG_X(1, eLOG_Error, "Use of custom LBOS address " + | ^~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' 224 | _mess.func = CORE_CURRENT_FUNCTION; \ | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' - 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:390:9: note: in expansion of macro 'CORE_LOG_X' - 390 | CORE_LOG_X(eLSub_Alloc, eLOG_Critical, - | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:163:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 163 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, 0, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:583:17: note: in expansion of macro 'CORE_LOG_ERRNO_X' + 583 | CORE_LOG_ERRNO_X(1, eLOG_Warning, errno, + | ^~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -13994,9 +13725,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:2219:13: note: in expansion of macro 'CORE_LOGF_X' - 2219 | CORE_LOGF_X(eLBOS_InvalidArgs, eLOG_Warning, - | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:591:17: note: in expansion of macro 'CORE_LOGF_X' + 591 | CORE_LOGF_X(1, eLOG_Warning, + | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -14006,51 +13737,43 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' - 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:401:9: note: in expansion of macro 'CORE_LOG_X' - 401 | CORE_LOG_X(eLSub_Alloc, eLOG_Critical, - | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:602:17: note: in expansion of macro 'CORE_LOGF_X' + 602 | CORE_LOGF_X(1, eLOG_Note, + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c: In function 's_LBOS_ReadLbosresolver': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' 224 | _mess.func = CORE_CURRENT_FUNCTION; \ | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' - 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:410:9: note: in expansion of macro 'CORE_LOG_X' - 410 | CORE_LOG_X(eLSub_Alloc, eLOG_Critical, - | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:2226:53: warning: format '%d' expects argument of type 'int *', but argument 3 has type 'unsigned int *' [-Wformat=] - 2226 | if (strlen(port_str) > 5 || (sscanf(port_str, "%d", &port) != 1) || - | ~^ ~~~~~ - | | | - | | unsigned int * - | int * - | %d -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c: In function 'LBOS_Deannounce': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:175:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 175 | DO_CORE_LOG_ERRNO(0, 0, level, error, 0, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:721:9: note: in expansion of macro 'CORE_LOGF_ERRNO' + 721 | CORE_LOGF_ERRNO(eLOG_Warning, errno, + | ^~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' 224 | _mess.func = CORE_CURRENT_FUNCTION; \ | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' - 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:2341:13: note: in expansion of macro 'CORE_LOG_X' - 2341 | CORE_LOG_X(eLBOS_DNSResolve, eLOG_Critical, - | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c: In function 'LBOS_DeannounceAll': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:175:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 175 | DO_CORE_LOG_ERRNO(0, 0, level, error, 0, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:730:9: note: in expansion of macro 'CORE_LOGF_ERRNO' + 730 | CORE_LOGF_ERRNO(eLOG_Warning, errno, + | ^~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -14060,12 +13783,13 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' - 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:159:5: note: in expansion of macro 'DO_CORE_LOG' + 159 | DO_CORE_LOG(0, 0, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:418:9: note: in expansion of macro 'CORE_LOG_X' - 418 | CORE_LOG_X(eLSub_Logic, eLOG_Critical, - | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:739:9: note: in expansion of macro 'CORE_LOGF' + 739 | CORE_LOGF(eLOG_Warning, + | ^~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c: In function 's_LBOS_ConnectURL': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -14075,13 +13799,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' - 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:159:5: note: in expansion of macro 'DO_CORE_LOG' + 159 | DO_CORE_LOG(0, 0, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:428:9: note: in expansion of macro 'CORE_LOG_X' - 428 | CORE_LOG_X(eLSub_Alloc, eLOG_Critical, - | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c: In function 's_Resolve': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:823:5: note: in expansion of macro 'CORE_LOGF' + 823 | CORE_LOGF(eLOG_Trace, ("Parsing URL \"%s\"", url)); + | ^~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -14091,12 +13814,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:155:5: note: in expansion of macro 'DO_CORE_LOG' + 155 | DO_CORE_LOG(0, 0, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:470:9: note: in expansion of macro 'CORE_LOGF_X' - 470 | CORE_LOGF_X(eLSub_Alloc, eLOG_Critical, - | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:825:9: note: in expansion of macro 'CORE_LOG' + 825 | CORE_LOG(eLOG_Warning, "Cannot parse URL"); + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -14106,12 +13829,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' - 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:159:5: note: in expansion of macro 'DO_CORE_LOG' + 159 | DO_CORE_LOG(0, 0, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:496:9: note: in expansion of macro 'CORE_LOG_X' - 496 | CORE_LOG_X(eLSub_Alloc, eLOG_Critical, - | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:828:5: note: in expansion of macro 'CORE_LOGF' + 828 | CORE_LOGF(eLOG_Trace, ("Creating HTTP%s connector", + | ^~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -14121,13 +13844,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:155:5: note: in expansion of macro 'DO_CORE_LOG' + 155 | DO_CORE_LOG(0, 0, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:509:9: note: in expansion of macro 'CORE_LOGF_X' - 509 | CORE_LOGF_X(eLSub_BadData, eLOG_Warning, - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c: In function 's_GetNextInfo': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:835:9: note: in expansion of macro 'CORE_LOG' + 835 | CORE_LOG(eLOG_Warning, "Cannot create HTTP connector"); + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -14137,12 +13859,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' - 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:155:5: note: in expansion of macro 'DO_CORE_LOG' + 155 | DO_CORE_LOG(0, 0, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:532:9: note: in expansion of macro 'CORE_LOG_X' - 532 | CORE_LOG_X(eLSub_Logic, eLOG_Critical, - | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:838:5: note: in expansion of macro 'CORE_LOG' + 838 | CORE_LOG(eLOG_Trace, "Creating connection"); + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -14152,12 +13874,13 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' - 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:155:5: note: in expansion of macro 'DO_CORE_LOG' + 155 | DO_CORE_LOG(0, 0, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:538:9: note: in expansion of macro 'CORE_LOG_X' - 538 | CORE_LOG_X(eLSub_Logic, eLOG_Critical, - | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:840:9: note: in expansion of macro 'CORE_LOG' + 840 | CORE_LOG(eLOG_Warning, "Cannot create connection"); + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c: In function 's_LBOS_UrlReadAll': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -14167,13 +13890,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' - 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:155:5: note: in expansion of macro 'DO_CORE_LOG' + 155 | DO_CORE_LOG(0, 0, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:563:13: note: in expansion of macro 'CORE_LOG_X' - 563 | CORE_LOG_X(eLSub_BadData, eLOG_Warning, - | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c: In function 'LINKERD_GetHttpProxy': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:899:9: note: in expansion of macro 'CORE_LOG' + 899 | CORE_LOG(eLOG_Critical, "s_LBOS_UrlReadAll: No RAM. " + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -14183,12 +13905,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' - 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:159:5: note: in expansion of macro 'DO_CORE_LOG' + 159 | DO_CORE_LOG(0, 0, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:626:9: note: in expansion of macro 'CORE_LOG_X' - 626 | CORE_LOG_X(eLSub_BadData, eLOG_Critical, - | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:911:13: note: in expansion of macro 'CORE_LOGF' + 911 | CORE_LOGF(eLOG_Critical, ("s_LBOS_UrlReadAll: LBOS returned " + | ^~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -14198,12 +13920,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' - 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:155:5: note: in expansion of macro 'DO_CORE_LOG' + 155 | DO_CORE_LOG(0, 0, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:632:9: note: in expansion of macro 'CORE_LOG_X' - 632 | CORE_LOG_X(eLSub_BadData, eLOG_Critical, - | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:939:17: note: in expansion of macro 'CORE_LOG' + 939 | CORE_LOG(eLOG_Warning, "s_LBOS_UrlReadAll: Buffer " + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -14213,12 +13935,22 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' - 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:155:5: note: in expansion of macro 'DO_CORE_LOG' + 155 | DO_CORE_LOG(0, 0, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:638:9: note: in expansion of macro 'CORE_LOG_X' - 638 | CORE_LOG_X(eLSub_BadData, eLOG_Critical, - | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:953:9: note: in expansion of macro 'CORE_LOG' + 953 | CORE_LOG(eLOG_Warning, "s_LBOS_UrlReadAll: Buffer shrink error, using " + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c: In function 's_LBOS_ResolveIPPort': +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_servicep.h:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lb.h:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_namerd.c:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:91:31: warning: ISO C restricts enumerator values to range of 'int' before C2X [-Wpedantic] + 91 | fSERV_IncludePrivate = 0x80000000, + | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:92:31: warning: ISO C restricts enumerator values to range of 'int' before C2X [-Wpedantic] + 92 | fSERV_Promiscuous = 0xF8000000 /**< Evrthng and the kitchen sink */ + | ^~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -14228,13 +13960,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' - 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:155:5: note: in expansion of macro 'DO_CORE_LOG' + 155 | DO_CORE_LOG(0, 0, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:2399:9: note: in expansion of macro 'CORE_LOG_X' - 2399 | CORE_LOG_X(eLBOS_MemAlloc, eLOG_Warning, - | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c: In function 's_LBOS_CheckConfArgs': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:985:9: note: in expansion of macro 'CORE_LOG' + 985 | CORE_LOG(eLOG_Critical, "s_LBOS_ResolveIPPort: No RAM. " + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -14244,12 +13975,13 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' - 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:155:5: note: in expansion of macro 'DO_CORE_LOG' + 155 | DO_CORE_LOG(0, 0, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:2451:9: note: in expansion of macro 'CORE_LOG_X' - 2451 | CORE_LOG_X(eLBOS_InvalidArgs, eLOG_Warning, - | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:1044:9: note: in expansion of macro 'CORE_LOG' + 1044 | CORE_LOG(eLOG_Critical, "s_LBOS_ResolveIPPort: No RAM. " + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c: In function 's_LBOS_FillCandidates': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -14262,10 +13994,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:2458:13: note: in expansion of macro 'CORE_LOGF_X' - 2458 | CORE_LOGF_X(eLBOS_InvalidArgs, eLOG_Warning, - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c: In function 'LBOS_ServiceVersionSet': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:1194:5: note: in expansion of macro 'CORE_LOGF_X' + 1194 | CORE_LOGF_X(1, eLOG_Trace, ("Trying to find servers of \"%s\" with " + | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -14275,12 +14006,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' - 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:644:9: note: in expansion of macro 'CORE_LOG_X' - 644 | CORE_LOG_X(eLSub_BadData, eLOG_Critical, - | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:1200:9: note: in expansion of macro 'CORE_LOGF_X' + 1200 | CORE_LOGF_X(1, eLOG_Trace, ("No servers of \"%s\" found by LBOS", + | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -14293,10 +14024,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:653:5: note: in expansion of macro 'CORE_LOGF_X' - 653 | CORE_LOGF_X(eLSub_Message, eLOG_Info, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:1205:5: note: in expansion of macro 'CORE_LOGF_X' + 1205 | CORE_LOGF_X(1, eLOG_Trace, ("Found %u servers of \"%s\" with " | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c: In function 'SERV_LINKERD_Open': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -14306,12 +14036,13 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' - 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:671:13: note: in expansion of macro 'CORE_LOG_X' - 671 | CORE_LOG_X(eLSub_Logic, eLOG_Critical, - | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:1218:13: note: in expansion of macro 'CORE_LOGF_X' + 1218 | CORE_LOGF_X(1, eLOG_Warning, + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c: In function 's_LBOS_CheckAnnounceArgs': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -14321,12 +14052,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' - 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:155:5: note: in expansion of macro 'DO_CORE_LOG' + 155 | DO_CORE_LOG(0, 0, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:676:13: note: in expansion of macro 'CORE_LOG_X' - 676 | CORE_LOG_X(eLSub_Logic, eLOG_Critical, - | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:1248:9: note: in expansion of macro 'CORE_LOG' + 1248 | CORE_LOG(eLOG_Critical, "Error with announcement, " + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -14336,12 +14067,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' - 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:155:5: note: in expansion of macro 'DO_CORE_LOG' + 155 | DO_CORE_LOG(0, 0, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:684:13: note: in expansion of macro 'CORE_LOG_X' - 684 | CORE_LOG_X(eLSub_BadData, eLOG_Error, - | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:1255:9: note: in expansion of macro 'CORE_LOG' + 1255 | CORE_LOG(eLOG_Critical, "Error with announcement, missing http:// or " + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -14351,12 +14082,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:155:5: note: in expansion of macro 'DO_CORE_LOG' + 155 | DO_CORE_LOG(0, 0, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:695:13: note: in expansion of macro 'CORE_LOGF_X' - 695 | CORE_LOGF_X(eLSub_Logic, eLOG_Critical, - | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:1265:17: note: in expansion of macro 'CORE_LOG' + 1265 | CORE_LOG(eLOG_Critical, "Error with announcement, " + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -14366,12 +14097,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:155:5: note: in expansion of macro 'DO_CORE_LOG' + 155 | DO_CORE_LOG(0, 0, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:702:13: note: in expansion of macro 'CORE_LOGF_X' - 702 | CORE_LOGF_X(eLSub_BadData, eLOG_Error, - | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:1275:9: note: in expansion of macro 'CORE_LOG' + 1275 | CORE_LOG(eLOG_Critical, "Error with announcement, invalid port."); + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -14381,12 +14112,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' - 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:155:5: note: in expansion of macro 'DO_CORE_LOG' + 155 | DO_CORE_LOG(0, 0, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:710:13: note: in expansion of macro 'CORE_LOG_X' - 710 | CORE_LOG_X(eLSub_BadData, eLOG_Error, - | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:1279:9: note: in expansion of macro 'CORE_LOG' + 1279 | CORE_LOG(eLOG_Critical, "Error with announcement, " + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -14396,12 +14127,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' - 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:155:5: note: in expansion of macro 'DO_CORE_LOG' + 155 | DO_CORE_LOG(0, 0, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:720:13: note: in expansion of macro 'CORE_LOG_X' - 720 | CORE_LOG_X(eLSub_Alloc, eLOG_Critical, - | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:1284:9: note: in expansion of macro 'CORE_LOG' + 1284 | CORE_LOG(eLOG_Critical, "Error with announcement, " + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -14411,12 +14142,13 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' - 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:155:5: note: in expansion of macro 'DO_CORE_LOG' + 155 | DO_CORE_LOG(0, 0, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:728:13: note: in expansion of macro 'CORE_LOG_X' - 728 | CORE_LOG_X(eLSub_Alloc, eLOG_Critical, "Couldn't clone net_info."); - | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:1289:9: note: in expansion of macro 'CORE_LOG' + 1289 | CORE_LOG(eLOG_Critical, "Error with announcement, " + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c: In function 's_LBOS_CheckDeannounceArgs': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -14426,12 +14158,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' - 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:155:5: note: in expansion of macro 'DO_CORE_LOG' + 155 | DO_CORE_LOG(0, 0, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:737:9: note: in expansion of macro 'CORE_LOG_X' - 737 | CORE_LOG_X(eLSub_BadData, eLOG_Error, - | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:1303:9: note: in expansion of macro 'CORE_LOG' + 1303 | CORE_LOG(eLOG_Critical, "Invalid argument passed for de-announcement, " + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -14441,12 +14173,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' - 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:155:5: note: in expansion of macro 'DO_CORE_LOG' + 155 | DO_CORE_LOG(0, 0, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:745:9: note: in expansion of macro 'CORE_LOG_X' - 745 | CORE_LOG_X(eLSub_BadData, eLOG_Error, - | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:1309:9: note: in expansion of macro 'CORE_LOG' + 1309 | CORE_LOG(eLOG_Critical, "Invalid argument passed for de-announcement, " + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -14456,12 +14188,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' - 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:155:5: note: in expansion of macro 'DO_CORE_LOG' + 155 | DO_CORE_LOG(0, 0, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:2550:9: note: in expansion of macro 'CORE_LOG_X' - 2550 | CORE_LOG_X(eLBOS_InvalidArgs, eLOG_Warning, - | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:1314:9: note: in expansion of macro 'CORE_LOG' + 1314 | CORE_LOG(eLOG_Critical, "Invalid argument passed for de-announcement, " + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -14471,12 +14203,13 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' - 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:155:5: note: in expansion of macro 'DO_CORE_LOG' + 155 | DO_CORE_LOG(0, 0, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:754:13: note: in expansion of macro 'CORE_LOG_X' - 754 | CORE_LOG_X(eLSub_BadData, eLOG_Error, - | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:1319:9: note: in expansion of macro 'CORE_LOG' + 1319 | CORE_LOG(eLOG_Critical, "Invalid argument passed for de-announcement, " + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c: In function 's_LBOS_Replace0000WithIP': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -14486,12 +14219,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' - 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:155:5: note: in expansion of macro 'DO_CORE_LOG' + 155 | DO_CORE_LOG(0, 0, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:765:13: note: in expansion of macro 'CORE_LOG_X' - 765 | CORE_LOG_X(eLSub_BadData, eLOG_Error, - | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:1404:9: note: in expansion of macro 'CORE_LOG' + 1404 | CORE_LOG(eLOG_Warning, "Failed memory allocation. Most likely, " + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:62, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_once.h:40, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_namerd.c:39: @@ -14508,21 +14241,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:775:9: note: in expansion of macro 'CORE_LOG_X' - 775 | CORE_LOG_X(eLSub_BadData, eLOG_Error, "No endpoint data found."); - | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' - 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_namerd.c:201:9: note: in expansion of macro 'CORE_LOG_X' 201 | CORE_LOG_X(eNSub_Logic, eLOG_Critical, | ^~~~~~~~~~ @@ -14541,21 +14259,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_namerd.c:206:9: note: in expansion of macro 'CORE_LOG_X' 206 | CORE_LOG_X(eNSub_Logic, eLOG_Critical, | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' - 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:795:17: note: in expansion of macro 'CORE_LOG_X' - 795 | CORE_LOG_X(eLSub_Message, eLOG_Info, - | ^~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_namerd.c: In function 's_CreateConnectorMemory': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ @@ -14572,6 +14275,7 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_namerd.c:229:9: note: in expansion of macro 'CORE_LOG_X' 229 | CORE_LOG_X(eNSub_Logic, eLOG_Critical, | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_namerd.c: In function 's_Init': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -14584,10 +14288,10 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:799:17: note: in expansion of macro 'CORE_LOG_X' - 799 | CORE_LOG_X(eLSub_Message, eLOG_Info, - | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_namerd.c: In function 's_Init': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_namerd.c:273:13: note: in expansion of macro 'CORE_LOG_X' + 273 | CORE_LOG_X(eNSub_Libc, eLOG_Error, + | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_namerd.c: In function 's_CONN_Create': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -14600,9 +14304,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_namerd.c:273:13: note: in expansion of macro 'CORE_LOG_X' - 273 | CORE_LOG_X(eNSub_Libc, eLOG_Error, - | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_namerd.c:288:9: note: in expansion of macro 'CORE_LOG_X' + 288 | CORE_LOG_X(eNSub_Logic, eLOG_Critical, + | ^~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -14615,10 +14319,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:805:17: note: in expansion of macro 'CORE_LOG_X' - 805 | CORE_LOG_X(eLSub_Message, eLOG_Info, - | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_namerd.c: In function 's_CONN_Create': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_namerd.c:293:9: note: in expansion of macro 'CORE_LOG_X' + 293 | CORE_LOG_X(eNSub_Logic, eLOG_Critical, + | ^~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -14631,8 +14334,8 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_namerd.c:288:9: note: in expansion of macro 'CORE_LOG_X' - 288 | CORE_LOG_X(eNSub_Logic, eLOG_Critical, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_namerd.c:298:9: note: in expansion of macro 'CORE_LOG_X' + 298 | CORE_LOG_X(eNSub_Logic, eLOG_Critical, | ^~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ @@ -14643,12 +14346,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' - 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:155:5: note: in expansion of macro 'DO_CORE_LOG' + 155 | DO_CORE_LOG(0, 0, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:807:17: note: in expansion of macro 'CORE_LOG_X' - 807 | CORE_LOG_X(eLSub_BadData, eLOG_Error, - | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:1412:9: note: in expansion of macro 'CORE_LOG' + 1412 | CORE_LOG(eLOG_Warning, + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -14658,12 +14361,13 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' - 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:155:5: note: in expansion of macro 'DO_CORE_LOG' + 155 | DO_CORE_LOG(0, 0, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_namerd.c:293:9: note: in expansion of macro 'CORE_LOG_X' - 293 | CORE_LOG_X(eNSub_Logic, eLOG_Critical, - | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:1419:9: note: in expansion of macro 'CORE_LOG' + 1419 | CORE_LOG(eLOG_Warning, + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c: In function 's_LBOS_ConstructData': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -14676,9 +14380,10 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_namerd.c:298:9: note: in expansion of macro 'CORE_LOG_X' - 298 | CORE_LOG_X(eNSub_Logic, eLOG_Critical, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:1563:9: note: in expansion of macro 'CORE_LOG_X' + 1563 | CORE_LOG_X(1, eLOG_Error, "Could not allocate memory for LBOS mapper"); | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c: In function 's_LBOS_Initialize': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -14703,12 +14408,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' + 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:819:13: note: in expansion of macro 'CORE_LOGF_X' - 819 | CORE_LOGF_X(eLSub_Logic, eLOG_Critical, - | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:1638:9: note: in expansion of macro 'CORE_LOG_X' + 1638 | CORE_LOG_X(1, eLOG_Trace, "No DTAB in registry"); + | ^~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -14736,9 +14441,10 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:826:9: note: in expansion of macro 'CORE_LOG_X' - 826 | CORE_LOG_X(eLSub_BadData, eLOG_Warning, "Unable to resolve endpoint."); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_namerd.c:321:9: note: in expansion of macro 'CORE_LOG_X' + 321 | CORE_LOG_X(eNSub_Connect, eLOG_Error, "Unable to create connector."); | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_namerd.c: In function 's_CONN_Destroy': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -14751,10 +14457,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_namerd.c:321:9: note: in expansion of macro 'CORE_LOG_X' - 321 | CORE_LOG_X(eNSub_Connect, eLOG_Error, "Unable to create connector."); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_namerd.c:332:9: note: in expansion of macro 'CORE_LOG_X' + 332 | CORE_LOG_X(eNSub_Logic, eLOG_Critical, | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_namerd.c: In function 's_CONN_Destroy': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -14764,12 +14469,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' - 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_namerd.c:332:9: note: in expansion of macro 'CORE_LOG_X' - 332 | CORE_LOG_X(eNSub_Logic, eLOG_Critical, - | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:1640:9: note: in expansion of macro 'CORE_LOGF_X' + 1640 | CORE_LOGF_X(1, eLOG_Trace, + | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -14785,6 +14490,21 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_namerd.c:338:9: note: in expansion of macro 'CORE_LOG_X' 338 | CORE_LOG_X(eNSub_Logic, eLOG_Critical, | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:1654:9: note: in expansion of macro 'CORE_LOGF_X' + 1654 | CORE_LOGF_X(1, eLOG_Warning, + | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_namerd.c: In function 's_UpdateDtab': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ @@ -14801,6 +14521,7 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_namerd.c:399:9: note: in expansion of macro 'CORE_LOG_X' 399 | CORE_LOG_X(eNSub_Alloc, eLOG_Critical, "Couldn't alloc for dtab."); | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c: In function 's_LBOS_ParseHeader': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_namerd.c: In function 's_GetReqMethod': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ @@ -14817,6 +14538,21 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_namerd.c:419:9: note: in expansion of macro 'CORE_LOG_X' 419 | CORE_LOG_X(eNSub_Alloc, eLOG_Critical, | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:159:5: note: in expansion of macro 'DO_CORE_LOG' + 159 | DO_CORE_LOG(0, 0, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:1702:9: note: in expansion of macro 'CORE_LOGF' + 1702 | CORE_LOGF(eLOG_Critical, ("s_LBOS_UrlReadAll: LBOS returned status " + | ^~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_namerd.c: In function 's_GetScheme': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ @@ -14833,6 +14569,7 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_namerd.c:441:9: note: in expansion of macro 'CORE_LOG_X' 441 | CORE_LOG_X(eNSub_Alloc, eLOG_Critical, | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c: In function 's_LBOS_Reset': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_namerd.c: In function 's_GetHttpProxy': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ @@ -15178,6 +14915,97 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:155:5: note: in expansion of macro 'DO_CORE_LOG' + 155 | DO_CORE_LOG(0, 0, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:1765:17: note: in expansion of macro 'CORE_LOG' + 1765 | CORE_LOG(eLOG_Critical, "s_LBOS_Reset: No RAM. " + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c: In function 'SERV_LBOS_Open': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:155:5: note: in expansion of macro 'DO_CORE_LOG' + 155 | DO_CORE_LOG(0, 0, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:1868:5: note: in expansion of macro 'CORE_LOG' + 1868 | CORE_LOG(eLOG_Error, "LBOS is deprecated, consider using LBSMD instead."); + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:155:5: note: in expansion of macro 'DO_CORE_LOG' + 155 | DO_CORE_LOG(0, 0, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:1880:9: note: in expansion of macro 'CORE_LOG' + 1880 | CORE_LOG(eLOG_Warning, "Mask was provided instead of service name. " + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:155:5: note: in expansion of macro 'DO_CORE_LOG' + 155 | DO_CORE_LOG(0, 0, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:1888:9: note: in expansion of macro 'CORE_LOG' + 1888 | CORE_LOG(eLOG_Warning, "\"iter->name\" is null, not able " + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:155:5: note: in expansion of macro 'DO_CORE_LOG' + 155 | DO_CORE_LOG(0, 0, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:1903:13: note: in expansion of macro 'CORE_LOG' + 1903 | CORE_LOG(eLOG_Warning, "Could not concatenate dbaf with service " + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:155:5: note: in expansion of macro 'DO_CORE_LOG' + 155 | DO_CORE_LOG(0, 0, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:1918:9: note: in expansion of macro 'CORE_LOG' + 1918 | CORE_LOG(eLOG_Warning, + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ @@ -15374,6 +15202,67 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:155:5: note: in expansion of macro 'DO_CORE_LOG' + 155 | DO_CORE_LOG(0, 0, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:1932:9: note: in expansion of macro 'CORE_LOG' + 1932 | CORE_LOG(eLOG_Critical, + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c: In function 's_LBOS_Announce': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:155:5: note: in expansion of macro 'DO_CORE_LOG' + 155 | DO_CORE_LOG(0, 0, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:2047:9: note: in expansion of macro 'CORE_LOG' + 2047 | CORE_LOG(eLOG_Warning, "Announce failed. No LBOS found."); + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:159:5: note: in expansion of macro 'DO_CORE_LOG' + 159 | DO_CORE_LOG(0, 0, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:2052:9: note: in expansion of macro 'CORE_LOGF' + 2052 | CORE_LOGF(eLOG_Warning, ("Announce failed. " + | ^~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:155:5: note: in expansion of macro 'DO_CORE_LOG' + 155 | DO_CORE_LOG(0, 0, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:2061:13: note: in expansion of macro 'CORE_LOG' + 2061 | CORE_LOG(eLOG_Warning, "Failed memory allocation. Most likely, " + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ @@ -15453,6 +15342,68 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:155:5: note: in expansion of macro 'DO_CORE_LOG' + 155 | DO_CORE_LOG(0, 0, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:2071:13: note: in expansion of macro 'CORE_LOG' + 2071 | CORE_LOG(eLOG_Warning, "g_LBOS_Announce: LBOS answered 200 OK, but " + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:159:5: note: in expansion of macro 'DO_CORE_LOG' + 159 | DO_CORE_LOG(0, 0, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:2084:9: note: in expansion of macro 'CORE_LOGF' + 2084 | CORE_LOGF(eLOG_Warning, ("Announce failed. " + | ^~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c: In function 'LBOS_Announce': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' + 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:2150:13: note: in expansion of macro 'CORE_LOG_X' + 2150 | CORE_LOG_X(eLBOS_InvalidArgs, eLOG_Critical, + | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c: In function 'LBOS_AnnounceFromRegistry': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:2219:13: note: in expansion of macro 'CORE_LOGF_X' + 2219 | CORE_LOGF_X(eLBOS_InvalidArgs, eLOG_Warning, + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ @@ -15491,6 +15442,13 @@ 1487 | CORE_LOGF_X(eNSub_Logic, eLOG_Critical, | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_namerd.c: In function 'SERV_NAMERD_Open': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:2226:53: warning: format '%d' expects argument of type 'int *', but argument 3 has type 'unsigned int *' [-Wformat=] + 2226 | if (strlen(port_str) > 5 || (sscanf(port_str, "%d", &port) != 1) || + | ~^ ~~~~~ + | | | + | | unsigned int * + | int * + | %d /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -15506,6 +15464,7 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_namerd.c:1542:9: note: in expansion of macro 'CORE_LOG_X' 1542 | CORE_LOG_X(eNSub_Logic, eLOG_Critical, | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c: In function 'LBOS_Deannounce': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -15533,9 +15492,25 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:2341:13: note: in expansion of macro 'CORE_LOG_X' + 2341 | CORE_LOG_X(eLBOS_DNSResolve, eLOG_Critical, + | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' + 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_namerd.c:1556:9: note: in expansion of macro 'CORE_LOG_X' 1556 | CORE_LOG_X(eNSub_BadData, eLOG_Error, | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c: In function 'LBOS_DeannounceAll': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -15563,6 +15538,22 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:2399:9: note: in expansion of macro 'CORE_LOG_X' + 2399 | CORE_LOG_X(eLBOS_MemAlloc, eLOG_Warning, + | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c: In function 's_LBOS_CheckConfArgs': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' + 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_namerd.c:1573:9: note: in expansion of macro 'CORE_LOG_X' 1573 | CORE_LOG_X(eNSub_BadData, eLOG_Error, | ^~~~~~~~~~ @@ -15593,6 +15584,37 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:2451:9: note: in expansion of macro 'CORE_LOG_X' + 2451 | CORE_LOG_X(eLBOS_InvalidArgs, eLOG_Warning, + | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:2458:13: note: in expansion of macro 'CORE_LOGF_X' + 2458 | CORE_LOGF_X(eLBOS_InvalidArgs, eLOG_Warning, + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c: In function 'LBOS_ServiceVersionSet': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' + 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_namerd.c:1592:13: note: in expansion of macro 'CORE_LOG_X' 1592 | CORE_LOG_X(eNSub_Alloc, eLOG_Critical, "Couldn't create net_info."); | ^~~~~~~~~~ @@ -15623,6 +15645,21 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:2550:9: note: in expansion of macro 'CORE_LOG_X' + 2550 | CORE_LOG_X(eLBOS_InvalidArgs, eLOG_Warning, + | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' + 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_namerd.c:1615:9: note: in expansion of macro 'CORE_LOG_X' 1615 | CORE_LOG_X(eNSub_BadData, eLOG_Critical, | ^~~~~~~~~~ @@ -15759,20 +15796,50 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/parson.c:140:12: note: length computed here 140 | return parson_strndup(string, strlen(string)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/parson.c: In function 'x_json_value_init_string': + -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/typeref.cpp -o typeref.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/typemap.cpp -o typemap.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/stdtypes.cpp -o stdtypes.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/enumerated.cpp -o enumerated.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/ptrinfo.cpp -o ptrinfo.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/autoptrinfo.cpp -o autoptrinfo.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -W/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/parson.c: In function 'x_json_value_init_string': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/parson.c:135:5: warning: '__builtin_strncpy' output truncated before terminating nul copying as many bytes from a string as its length [-Wstringop-truncation] 135 | strncpy(output_string, string, n); | ^ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/parson.c:1119:18: note: length computed here 1119 | string_len = strlen(string); | ^~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/parson.c: In function 'x_json_parse_string_with_comments': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/parson.c:135:5: warning: '__builtin_strncpy' output truncated before terminating nul copying as many bytes from a string as its length [-Wstringop-truncation] + 135 | strncpy(output_string, string, n); + | ^ +In function 'parson_strdup', + inlined from 'x_json_parse_string_with_comments' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/parson.c:913:27: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/parson.c:140:12: note: length computed here + 140 | return parson_strndup(string, strlen(string)); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/parson.c: In function 'x_json_value_deep_copy': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/parson.c:135:5: warning: '__builtin_strncpy' output truncated before terminating nul copying as many bytes from a string as its length [-Wstringop-truncation] + 135 | strncpy(output_string, string, n); + | ^ +In function 'parson_strdup', + inlined from 'x_json_value_deep_copy' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/parson.c:1213:32: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/parson.c:140:12: note: length computed here + 140 | return parson_strndup(string, strlen(string)); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_localip.c -o ncbi_localip.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket_cxx.cpp -o ncbi_socket_cxx.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_core_cxx.cpp -o ncbi_core_cxx.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/email_diag_handler.cpp -o email_diag_handler.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_conn_streambuf.cpp -o ncbi_conn_streambuf.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_conn_stream.cpp -o ncbi_conn_stream.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/gene_info_reader/gene_info_reader.cpp:37: +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2ible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/cgi_run.cpp -o cgi_run.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/cgi_util.cpp -o cgi_util.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/cgi_serial.cpp -o cgi_serial.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/cgi_session.cpp -o cgi_session.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/cgi_exception.cpp -o cgi_exception.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/cgiapp_cached.cpp -o cgiapp_cached.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-prIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/gene_info_reader/gene_info_reader.cpp:37: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 108 | auto_ptr m_memGi2GeneFile; | ^~~~~~~~ @@ -15806,40 +15873,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/parson.c: In function 'x_json_parse_string_with_comments': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/parson.c:135:5: warning: '__builtin_strncpy' output truncated before terminating nul copying as many bytes from a string as its length [-Wstringop-truncation] - 135 | strncpy(output_string, string, n); - | ^ -In function 'parson_strdup', - inlined from 'x_json_parse_string_with_comments' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/parson.c:913:27: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/parson.c:140:12: note: length computed here - 140 | return parson_strndup(string, strlen(string)); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/parson.c: In function 'x_json_value_deep_copy': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/parson.c:135:5: warning: '__builtin_strncpy' output truncated before terminating nul copying as many bytes from a string as its length [-Wstringop-truncation] - 135 | strncpy(output_string, string, n); - | ^ -In function 'parson_strdup', - inlined from 'x_json_value_deep_copy' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/parson.c:1213:32: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/parson.c:140:12: note: length computed here - 140 | return parson_strndup(string, strlen(string)); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/typeref.cpp -o typeref.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/typemap.cpp -o typemap.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/stdtypes.cpp -o stdtypes.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/enumerated.cpp -o enumerated.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/ptrinfo.cpp -o ptrinfo.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/autoptrinfo.cpp -o autoptrinfo.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Wmake[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/logging' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/logging/message.cpp -o message.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/logging/listener.cpp -o listener.o -/bin/rm -f libxlogging.so .libxlogging.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libxlogging.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC message.o listener.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libxlogging.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libxlogging.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libxlogging.so -/bin/ln -f .xlogging.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.xlogging.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/logging' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/typeref.cpp:37: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] @@ -15855,14 +15888,17 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/logging' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/logging/message.cpp -o message.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/logging/listener.cpp -o listener.o +/bin/rm -f libxlogging.so .libxlogging.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libxlogging.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC message.o listener.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libxlogging.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libxlogging.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libxlogging.so +/bin/ln -f .xlogging.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.xlogging.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/logging' make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/logging' -ible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/cgi_run.cpp -o cgi_run.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/cgi_util.cpp -o cgi_util.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/cgi_serial.cpp -o cgi_serial.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/cgi_session.cpp -o cgi_session.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/cgi_exception.cpp -o cgi_exception.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/cgiapp_cached.cpp -o cgiapp_cached.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-prIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/typeinfo.cpp:41: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; @@ -15879,7 +15915,13 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, + -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_conn_test.cpp -o ncbi_conn_test.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_misc.cpp -o ncbi_misc.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_namedpipe.cpp -o ncbi_namedpipe.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_namedpipe_connector.cpp -o ncbi_namedpipe_connector.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_pipe.cpp -o ncbi_pipe.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_pipe_connector.cpp -o ncbi_pipe_connector.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/user_agent.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] @@ -16016,103 +16058,7 @@ /bin/ln -f .sequtil.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.sequtil.dep make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/sequtil' make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/sequtil' - -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_conn_test.cpp -o ncbi_conn_test.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_misc.cpp -o ncbi_misc.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_namedpipe.cpp -o ncbi_namedpipe.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_namedpipe_connector.cpp -o ncbi_namedpipe_connector.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_pipe.cpp -o ncbi_pipe.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_pipe_connector.cpp -o ncbi_pipe_connector.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/stltypes.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypesimpl.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/stltypes.cpp:34: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=GENEINFO -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/gene_info_reader/gene_info.cpp -o gene_info.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=GENEINFO -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/gene_info_reader/gene_info_reader.cpp -o gene_info_reader.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=GENEINFO -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/gene_info_reader/file_utils.cpp -o file_utils.o -/bin/rm -f libgene_info.so .libgene_info.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libgene_info.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC gene_info.o gene_info_reader.o file_utils.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxncbi -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libgene_info.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libgene_info.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libgene_info.so -/bin/ln -f .gene_info.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.gene_info.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader' -cd objtools/blast/gene_info_reader/unit_test/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=gene_info_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/unit_test' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_pipe.cpp: In constructor 'ncbi::CPipe::CPipe(const std::string&, const std::vector >&, TCreateFlags, const std::string&, const char* const*, size_t)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_pipe.cpp:1856:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1856 | auto_ptr pipe_handle_ptr(new CPipeHandle); - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbictype.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistre.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_stack.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/error_codes.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_pipe.cpp:40: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/unit_test' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/unit_test' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/unit_test' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/unit_test' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/gene_info_reader/unit_test TMPL=gene_info_unit_test -w -j12 --jobserver-auth=7,8 all -make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/gene_info_reader/unit_test/gene_info_test.cpp:31: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos_cxx.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) @@ -16222,76 +16168,29 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ - ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:85: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:77: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^~~~~~~~~~~~~~~~~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/profile' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/profile/rtprofile.cpp -o rtprofile.o +/bin/rm -f libutrtprof.so .libutrtprof.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libutrtprof.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC rtprofile.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libutrtprof.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libutrtprof.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libutrtprof.so +/bin/ln -f .utrtprof.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.utrtprof.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/profile' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/profile' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_pipe.cpp: In constructor 'ncbi::CPipe::CPipe(const std::string&, const std::vector >&, TCreateFlags, const std::string&, const char* const*, size_t)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_pipe.cpp:1856:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1856 | auto_ptr pipe_handle_ptr(new CPipeHandle); + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbictype.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistre.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_stack.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/error_codes.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_pipe.cpp:40: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ error=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/continfo.cpp -o continfo.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/stltypes.cpp -o stltypes.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/memberid.cpp -o memberid.o @@ -16304,23 +16203,20 @@ /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos_cxx.cpp -o ncbi_lbos_cxx.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_monkey.cpp -o ncbi_monkey.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_service_cxx.cpp -o ncbi_service_cxx.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/stdtypes.cpp: In static member function 'static void ncbi::CPrimitiveTypeFunctions::Skip(ncbi::CObjectIStream&, ncbi::TTypeInfo) [with T = long double]': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/stdtypes.cpp:147:23: warning: 'data' may be used uninitialized [-Wmaybe-uninitialized] - 147 | in.SkipStd(data); - | ~~~~~~~~~~^~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/stdtypes.cpp:147:23: note: by argument 2 of type 'const long double&' to 'void (ncbi::CObjectIStream::)(const long double&)' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/stdtypes.cpp:146:25: note: 'data' declared here - 146 | TObjectType data; - | ^~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/profile' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/profile/rtprofile.cpp -o rtprofile.o -/bin/rm -f libutrtprof.so .libutrtprof.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libutrtprof.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC rtprofile.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libutrtprof.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libutrtprof.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libutrtprof.so -/bin/ln -f .utrtprof.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.utrtprof.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/profile' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/profile' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/stltypes.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypesimpl.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/stltypes.cpp:34: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_gnutls.c:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connssl.h:48:25: warning: ISO C restricts enumerator values to range of 'int' before C2X [-Wpedantic] 48 | eNcbiCred_MbedTls = 0xC12CC114 @@ -16367,7 +16263,13 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_gnutls.c:836:5: note: in expansion of macro 'CORE_LOG' 836 | CORE_LOG(eLOG_Warning, "Unavailable feature GNUTLS"); | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_mbedtls.c:34: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_localip_cxx.cpp -o ncbi_localip_cxx.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_blowfish.c -o ncbi_blowfish.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_usage_report.cpp -o ncbi_usage_report.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/connect_misc.cpp -o connect_misc.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_gnutls.c -o ncbi_gnutls.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_mbedtls.c -o ncbi_mbedtls.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCEIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_mbedtls.c:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connssl.h:48:25: warning: ISO C restricts enumerator values to range of 'int' before C2X [-Wpedantic] 48 | eNcbiCred_MbedTls = 0xC12CC114 | ^~~~~~~~~~ @@ -16379,13 +16281,11 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:92:31: warning: ISO C restricts enumerator values to range of 'int' before C2X [-Wpedantic] 92 | fSERV_Promiscuous = 0xF8000000 /**< Evrthng and the kitchen sink */ | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_localip_cxx.cpp -o ncbi_localip_cxx.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_blowfish.c -o ncbi_blowfish.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_usage_report.cpp -o ncbi_usage_report.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/connect_misc.cpp -o connect_misc.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_gnutls.c -o ncbi_gnutls.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_mbedtls.c -o ncbi_mbedtls.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCEIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:62, +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_tls.c:34: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connssl.h:48:25: warning: ISO C restricts enumerator values to range of 'int' before C2X [-Wpedantic] + 48 | eNcbiCred_MbedTls = 0xC12CC114 + | ^~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:62, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_mbedtls.c:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_mbedtls.c: In function 'x_MbedTlsLogger': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] @@ -16434,6 +16334,14 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_mbedtls.c:339:13: note: in expansion of macro 'CORE_LOGF' 339 | CORE_LOGF(eLOG_Error, | ^~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_servicep.h:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_tls.c:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:91:31: warning: ISO C restricts enumerator values to range of 'int' before C2X [-Wpedantic] + 91 | fSERV_IncludePrivate = 0x80000000, + | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:92:31: warning: ISO C restricts enumerator values to range of 'int' before C2X [-Wpedantic] + 92 | fSERV_Promiscuous = 0xF8000000 /**< Evrthng and the kitchen sink */ + | ^~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_mbedtls.c: In function 's_MbedTlsWrite': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_mbedtls.c:551:9: warning: 'mbedtls_ssl_get_max_frag_len' is deprecated [-Wdeprecated-declarations] 551 | = mbedtls_ssl_get_max_frag_len((mbedtls_ssl_context*) session); @@ -16459,18 +16367,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_mbedtls.c:704:9: note: in expansion of macro 'CORE_LOGF' 704 | CORE_LOGF(level, ("%s V%s (LogLevel=%d)", | ^~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_tls.c:34: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connssl.h:48:25: warning: ISO C restricts enumerator values to range of 'int' before C2X [-Wpedantic] - 48 | eNcbiCred_MbedTls = 0xC12CC114 - | ^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_servicep.h:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_tls.c:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:91:31: warning: ISO C restricts enumerator values to range of 'int' before C2X [-Wpedantic] - 91 | fSERV_IncludePrivate = 0x80000000, - | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:92:31: warning: ISO C restricts enumerator values to range of 'int' before C2X [-Wpedantic] - 92 | fSERV_Promiscuous = 0xF8000000 /**< Evrthng and the kitchen sink */ - | ^~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:62, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_tls.c:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_tls.c: In function 's_NoTlsInit': @@ -16536,13 +16432,180 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_tls.c:97:13: note: in expansion of macro 'CORE_LOG' 97 | CORE_LOG(eLOG_Critical, "No TLS support included in this build"); | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=GENEINFO -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/gene_info_reader/gene_info.cpp -o gene_info.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=GENEINFO -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/gene_info_reader/gene_info_reader.cpp -o gene_info_reader.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=GENEINFO -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/gene_info_reader/file_utils.cpp -o file_utils.o +/bin/rm -f libgene_info.so .libgene_info.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libgene_info.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC gene_info.o gene_info_reader.o file_utils.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxncbi -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libgene_info.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libgene_info.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libgene_info.so +/bin/ln -f .gene_info.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.gene_info.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader' +cd objtools/blast/gene_info_reader/unit_test/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=gene_info_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/unit_test' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/unit_test' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/unit_test' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/unit_test' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/unit_test' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/gene_info_reader/unit_test TMPL=gene_info_unit_test -w -j12 --jobserver-auth=7,8 all +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/gene_info_reader/unit_test/gene_info_test.cpp:31: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:85: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:77: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/stdtypes.cpp: In static member function 'static void ncbi::CPrimitiveTypeFunctions::Skip(ncbi::CObjectIStream&, ncbi::TTypeInfo) [with T = long double]': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/stdtypes.cpp:147:23: warning: 'data' may be used uninitialized [-Wmaybe-uninitialized] + 147 | in.SkipStd(data); + | ~~~~~~~~~~^~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/stdtypes.cpp:147:23: note: by argument 2 of type 'const long double&' to 'void (ncbi::CObjectIStream::)(const long double&)' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/stdtypes.cpp:146:25: note: 'data' declared here + 146 | TObjectType data; + | ^~~~ FE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/member.cpp -o member.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/classinfo.cpp -o classinfo.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/variant.cpp -o variant.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/choice.cpp -o choice.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/choiceptr.cpp -o choiceptr.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/aliasinfo.cpp -o aliasinfo.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/seriaIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/gene_info_reader/unit_test/gene_info_test.cpp:35: +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/seriamake[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/member.cpp:45: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/member.cpp:35: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objistr.cpp:62: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objistr.cpp:35: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/gene_info_reader/unit_test/gene_info_test.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 108 | auto_ptr m_memGi2GeneFile; | ^~~~~~~~ @@ -16616,19 +16679,6 @@ 65 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/member.cpp:45: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/member.cpp:35: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/variant.cpp:47: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; @@ -16654,7 +16704,7 @@ make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/html' make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/html' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objistr.cpp:62: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objostr.cpp:62: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ @@ -16662,12 +16712,12 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objistr.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objostr.cpp:35: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objcopy.cpp:48: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/serial.cpp:37: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ @@ -16675,12 +16725,12 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objcopy.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/serial.cpp:34: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objostr.cpp:62: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objcopy.cpp:48: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ @@ -16688,7 +16738,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objostr.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objcopy.cpp:35: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -16699,26 +16749,23 @@ /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/serial.cpp -o serial.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/delaybuf.cpp -o delaybuf.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/pack_string.cpp -o pack_string.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/sIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/serial.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/serial.cpp:34: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -hare/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/exception.cpp -o exception.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objhook.cpp -o objhook.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objlist.cpp -o objlist.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objstack.cpp -o objstack.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objostrasn.cpp -o objostrasn.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objistrasn.cpp -o objistrasn.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFF=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_tls.c -o ncbi_tls.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/smake[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/unit_test' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=gene_info_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/gene_info_reader/unit_test/gene_info_test.cpp -o gene_info_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie gene_info_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lgene_info -lxncbi -lm -lpthread -o gene_info_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f gene_info_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f gene_info_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/gene_info_unit_test +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/unit_test' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/unit_test' +otection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/cgi_entry_reader.cpp -o cgi_entry_reader.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/user_agent.cpp -o user_agent.o +/bin/rm -f libxcgi.so .libxcgi.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libxcgi.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC ncbicgi.o cgiapp.o cgictx.o ncbicgir.o ncbires.o ref_args.o cgi_run.o cgi_util.o cgi_serial.o cgi_session.o cgi_exception.o cgiapp_cached.o cgi_entry_reader.o user_agent.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxutil -lxncbi -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libxcgi.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libxcgi.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libxcgi.so +/bin/ln -f .xcgi.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.xcgi.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/cgi' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/cgi' +=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_tls.c -o ncbi_tls.o /bin/rm -f libxconnect.so .libxconnect.so.stamp /usr/bin/g++ -std=gnu++14 -shared -o libxconnect.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -Wl,--as-needed -fPIC ncbi_lbsmd_stub.o ncbi_ansi_ext.o ncbi_types.o ncbi_core.o ncbi_priv.o ncbi_util.o ncbi_buffer.o ncbi_socket.o ncbi_connector.o ncbi_connection.o ncbi_connutil.o ncbi_ipv6.o ncbi_server_info.o ncbi_host_info.o ncbi_service.o ncbi_sendmail.o ncbi_base64.o ncbi_heapmgr.o ncbi_lb.o ncbi_socket_connector.o ncbi_file_connector.o ncbi_http_connector.o ncbi_memory_connector.o ncbi_service_connector.o ncbi_ftp_connector.o ncbi_version.o ncbi_iprange.o ncbi_local.o ncbi_dispd.o ncbi_lbos.o ncbi_linkerd.o ncbi_namerd.o parson.o ncbi_localip.o ncbi_socket_cxx.o ncbi_core_cxx.o email_diag_handler.o ncbi_conn_streambuf.o ncbi_conn_stream.o ncbi_conn_test.o ncbi_misc.o ncbi_namedpipe.o ncbi_namedpipe_connector.o ncbi_pipe.o ncbi_pipe_connector.o ncbi_conn_reader_writer.o ncbi_userhost.o ncbi_http_session.o ncbi_lbos_cxx.o ncbi_monkey.o ncbi_service_cxx.o ncbi_localip_cxx.o ncbi_blowfish.o ncbi_usage_report.o connect_misc.o ncbi_gnutls.o ncbi_mbedtls.o ncbi_tls.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxncbi -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread /bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libxconnect.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib @@ -16735,6 +16782,9 @@ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/core' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/core' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/core' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/core' @@ -16742,9 +16792,6 @@ make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core TMPL=blast -w -j12 --jobserver-auth=7,8 all -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect TMPL=xthrserv -w -j12 --jobserver-auth=7,8 all make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: warning: -j12 forced in submake: resetting jobserver mode. @@ -16754,7 +16801,12 @@ /usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_engine.c -o blast_engine.o /usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_extend.c -o blast_extend.o /usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_filter.c -o blast_filter.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=fo/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/aa_ungapped.c: In function 's_BlastAaWordFinder_TwoHit': +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_gapalign.c -o blast_gapalign.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_hits.c -o blast_hits.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_hspstream.c -o blast_hspstream.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_itree.c -o blast_itree.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_kappa.c -o blast_kappa.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_lookup.c -o blast_lookup.o /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/aa_ungapped.c: In function 's_BlastAaWordFinder_TwoHit': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/aa_ungapped.c:484:19: warning: ISO C forbids conversion of object pointer to function pointer type [-Wpedantic] 484 | scansub = (TAaScanSubjectFunction)(lookup->scansub_callback); | ^ @@ -16769,12 +16821,7 @@ 758 | scansub = (TAaScanSubjectFunction)(lookup->scansub_callback); | ^ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_engine.c: In function 'BLAST_PreliminarySearchEngine': -rmat-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_gapalign.c -o blast_gapalign.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_hits.c -o blast_hits.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_hspstream.c -o blast_hspstream.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_itree.c -o blast_itree.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_kappa.c -o blast_kappa.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_lookup.c -o blast_lookup.o /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_engine.c:1366:9: warning: ISO C forbids conversion of object pointer to function pointer type [-Wpedantic] +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_engine.c:1366:9: warning: ISO C forbids conversion of object pointer to function pointer type [-Wpedantic] 1366 | (T_MB_IdbCheckOid)lookup_wrap->check_index_oid; | ^ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_engine.c:1504:22: warning: ISO C forbids conversion of object pointer to function pointer type [-Wpedantic] @@ -16783,7 +16830,13 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_engine.c:1591:10: warning: ISO C forbids conversion of object pointer to function pointer type [-Wpedantic] 1591 | ((T_MB_IdxEndSearchIndication)( | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_aascan.c: In function 'BlastChooseProteinScanSubject': +hare/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/exception.cpp -o exception.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objhook.cpp -o objhook.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objlist.cpp -o objlist.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objstack.cpp -o objstack.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objostrasn.cpp -o objostrasn.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objistrasn.cpp -o objistrasn.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFF/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_aascan.c: In function 'BlastChooseProteinScanSubject': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_aascan.c:567:36: warning: ISO C forbids conversion of function pointer to object pointer type [-Wpedantic] 567 | lut->scansub_callback = (void *)s_BlastAaScanSubject; | ^ @@ -16892,7 +16945,13 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_nascan.c:2647:43: warning: ISO C forbids conversion of function pointer to object pointer type [-Wpedantic] 2647 | mb_lt->scansub_callback = (void *)s_MBScanSubject_10_3; | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_nascan.c:2649:43: warning: ISO C forbids conversion of function pointer to object pointer type [-Wpedantic] + +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_aalookup.c -o blast_aalookup.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_aascan.c -o blast_aascan.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_nalookup.c -o blast_nalookup.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_nascan.c -o blast_nascan.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_message.c -o blast_message.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_nascan.c:2649:43: warning: ISO C forbids conversion of function pointer to object pointer type [-Wpedantic] 2649 | mb_lt->scansub_callback = (void *)s_MBScanSubject_Any; | ^ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_nascan.c:2655:43: warning: ISO C forbids conversion of function pointer to object pointer type [-Wpedantic] @@ -16931,13 +16990,7 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_nascan.c:3006:12: warning: ISO C forbids conversion of function pointer to object pointer type [-Wpedantic] 3006 | return (void *)s_MBScanSubject_Any; | ^ - -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_aalookup.c -o blast_aalookup.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_aascan.c -o blast_aascan.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_nalookup.c -o blast_nalookup.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_nascan.c -o blast_nascan.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_message.c -o blast_message.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/na_ungapped.c: In function 's_IsSeedMasked': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/na_ungapped.c: In function 's_IsSeedMasked': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/na_ungapped.c:488:15: warning: ISO C forbids conversion of object pointer to function pointer type [-Wpedantic] 488 | return !(((T_Lookup_Callback)(lookup_wrap->lookup_callback)) | ^ @@ -17036,29 +17089,7 @@ /usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_psi_priv.c -o blast_psi_priv.o /usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_seg.c -o blast_seg.o /usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_seqsrc.c -o blast_seqsrc.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-functiomake[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/unit_test' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=gene_info_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/gene_info_reader/unit_test/gene_info_test.cpp -o gene_info_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie gene_info_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lgene_info -lxncbi -lm -lpthread -o gene_info_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f gene_info_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f gene_info_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/gene_info_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/unit_test' -otection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/cgi_entry_reader.cpp -o cgi_entry_reader.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/user_agent.cpp -o user_agent.o -/bin/rm -f libxcgi.so .libxcgi.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libxcgi.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC ncbicgi.o cgiapp.o cgictx.o ncbicgir.o ncbires.o ref_args.o cgi_run.o cgi_util.o cgi_serial.o cgi_session.o cgi_exception.o cgiapp_cached.o cgi_entry_reader.o user_agent.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxutil -lxncbi -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libxcgi.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libxcgi.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libxcgi.so -/bin/ln -f .xcgi.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.xcgi.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/cgi' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/unit_test' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/cgi' -SET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objostrasnb.cpp -o objostrasnb.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objistrasnb.cpp -o objistrasnb.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objostrxml.cpp -o objostrxml.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objistrxml.cpp -o objistrxml.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objostrjson.cpp -o objostrjson.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objistrjson.cpp -o objistrjson.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c+/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_util.c: In function 'BlastProgram2Number': +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-functio/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_util.c: In function 'BlastProgram2Number': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_util.c:306:10: warning: this 'if' clause does not guard... [-Wmisleading-indentation] 306 | else if (strcasecmp("mapper", program) == 0) | ^~ @@ -17085,36 +17116,21 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/link_hsps.c: In function 's_FwdCompareHSPs': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/link_hsps.c:133:5: warning: this 'if' clause does not guard... [-Wmisleading-indentation] - 133 | if (h1->context > h2->context) - | ^~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/link_hsps.c:136:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' - 136 | if (h1->query.offset < h2->query.offset) - | ^~ -+/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/greedy_align.c -o greedy_align.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/hspfilter_collector.c -o hspfilter_collector.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/hspfilter_besthit.c -o hspfilter_besthit.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/hspfilter_culling.c -o hspfilter_culling.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/link_hsps.c -o link_hsps.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/lookup_util.c -o lookup_util.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/lookup_wrap.c -o lookup_wrap.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/matrix_freq_ratios.c -o matrix_freq_ratios.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/ncbi_std.c -o ncbi_std.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/ncbi_math.c -o ncbi_math.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_encoding.c -o blast_encoding.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproduciblIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/connection_pool.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/connection_pool.cpp:36: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/connection_pool.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/server.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/impl/server_connection.hpp:113:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 113 | auto_ptr m_Handler; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbictype.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistre.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_stack.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/error_codes.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/connection_pool.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_param.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/server.cpp:34: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -17124,7 +17140,32 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/threaded_server.cpp:47:54: warning: 'CThreadedServer' is deprecated [-Wdeprecated-declarations] +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/server.cpp: In constructor 'ncbi::CAcceptRequest::CAcceptRequest(ncbi::EServIO_Event, ncbi::CServer_ConnectionPool&, const STimeout*, ncbi::CServer_Listener*)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/server.cpp:389:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 389 | auto_ptr conn( + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ ++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/greedy_align.c -o greedy_align.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/hspfilter_collector.c -o hspfilter_collector.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/hspfilter_besthit.c -o hspfilter_besthit.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/hspfilter_culling.c -o hspfilter_culling.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/link_hsps.c -o link_hsps.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/lookup_util.c -o lookup_util.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/link_hsps.c: In function 's_FwdCompareHSPs': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/link_hsps.c:133:5: warning: this 'if' clause does not guard... [-Wmisleading-indentation] + 133 | if (h1->context > h2->context) + | ^~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/link_hsps.c:136:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' + 136 | if (h1->query.offset < h2->query.offset) + | ^~ +-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/lookup_wrap.c -o lookup_wrap.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/matrix_freq_ratios.c -o matrix_freq_ratios.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/ncbi_std.c -o ncbi_std.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/ncbi_math.c -o ncbi_math.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_encoding.c -o blast_encoding.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducibl/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/threaded_server.cpp:47:54: warning: 'CThreadedServer' is deprecated [-Wdeprecated-declarations] 47 | CSocketRequest(CThreadedServer& server, SOCK sock) // NCBI_FAKE_WARNING | ^ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/threaded_server.cpp:33: @@ -17137,27 +17178,18 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/threaded_server.hpp:77:44: note: declared here 77 | NCBI_DEPRECATED_CLASS NCBI_XCONNECT_EXPORT CThreadedServer | ^~~~~~~~~~~~~~~ -e-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/pattern.c -o pattern.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/phi_extend.c -o phi_extend.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/phi_gapalign.c -o phi_gapalign.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/phi_lookup.c -o phi_lookup.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_parameters.c -o blast_parameters.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_posit.c -o blast_posit.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedanIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/connection_pool.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/server.cpp:35: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/connection_pool.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/connection_pool.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/impl/server_connection.hpp:113:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 113 | auto_ptr m_Handler; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_param.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/server.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbictype.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistre.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_stack.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/error_codes.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/connection_pool.cpp:35: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -17167,20 +17199,19 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/server.cpp: In constructor 'ncbi::CAcceptRequest::CAcceptRequest(ncbi::EServIO_Event, ncbi::CServer_ConnectionPool&, const STimeout*, ncbi::CServer_Listener*)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/server.cpp:389:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 389 | auto_ptr conn( - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -tic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_program.c -o blast_program.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_query_info.c -o blast_query_info.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_tune.c -o blast_tune.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_sw.c -o blast_sw.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_dynarray.c -o blast_dynarray.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/split_query.c -o split_query.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/phi_lookup.c: In function 'SPHIPatternSearchBlkNew': +e-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/pattern.c -o pattern.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/phi_extend.c -o phi_extend.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/phi_gapalign.c -o phi_gapalign.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/phi_lookup.c -o phi_lookup.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_parameters.c -o blast_parameters.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_posit.c -o blast_posit.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedanSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objostrasnb.cpp -o objostrasnb.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objistrasnb.cpp -o objistrasnb.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objostrxml.cpp -o objostrxml.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objistrxml.cpp -o objistrxml.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objostrjson.cpp -o objostrjson.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objistrjson.cpp -o objistrjson.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c+/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/phi_lookup.c: In function 'SPHIPatternSearchBlkNew': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/phi_lookup.c:634:30: warning: writing 1 byte into a region of size 0 [-Wstringop-overflow=] 634 | localPattern[posIndex-1] = 1; | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~ @@ -17193,26 +17224,18 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/phi_lookup.c:411:11: note: at offset -1 into destination object 'localPattern' of size 330 411 | Uint1 localPattern[PHI_MAX_PATTERN_LENGTH]; /*local variable to hold for each position whether | ^~~~~~~~~~~~ --Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/gencode_singleton.c -o gencode_singleton.o +tic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_program.c -o blast_program.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_query_info.c -o blast_query_info.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_tune.c -o blast_tune.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_sw.c -o blast_sw.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_dynarray.c -o blast_dynarray.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/split_query.c -o split_query.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/gencode_singleton.c -o gencode_singleton.o /usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/index_ungapped.c -o index_ungapped.o /usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_traceback_mt_priv.c -o blast_traceback_mt_priv.o /usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_hspstream_mt_utils.c -o blast_hspstream_mt_utils.o /usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/boost_erf.c -o boost_erf.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/compress/api/lzo.cpp -o lzo.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/compress/api/reader_zlib.cpp -o reader_zlib.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/compress/api/tar.cpp -o tar.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/compress/api/archive.cpp -o archive.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/compress/api/archive_.cpp -o archive_.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/compress/api/archive_zip.cpp -o archive_zip.o -/bin/rm -f libxcompress.so .libxcompress.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libxcompress.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC compress.o stream.o streambuf.o stream_util.o bzip2.o zlib.o lzo.o reader_zlib.o tar.o archive.o archive_.o archive_zip.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxutil -lxncbi -lbz2 -lz -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libxcompress.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libxcompress.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libxcompress.so -/bin/ln -f .xcompress.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.xcompress.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/api' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/api' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/threaded_server.cpp -o threaded_server.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/server.cpp -o server.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/server_monitor.cpp -o server_monitor.o @@ -17227,16 +17250,6 @@ cd connect/services/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=xconnserv UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect/services' make[4]: warning: -j12 forced in submake: resetting jobserver mode. --D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/jumper.c -o jumper.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/hspfilter_mapper.c -o hspfilter_mapper.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/spliced_hits.c -o spliced_hits.o -/bin/rm -f libblast.so .libblast.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libblast.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC aa_ungapped.o blast_diagnostics.o blast_engine.o blast_extend.o blast_filter.o blast_gapalign.o blast_hits.o blast_hspstream.o blast_itree.o blast_kappa.o blast_lookup.o blast_aalookup.o blast_aascan.o blast_nalookup.o blast_nascan.o blast_message.o blast_options.o blast_psi.o na_ungapped.o blast_psi_priv.o blast_seg.o blast_seqsrc.o blast_setup.o blast_stat.o blast_traceback.o blast_util.o gapinfo.o greedy_align.o hspfilter_collector.o hspfilter_besthit.o hspfilter_culling.o link_hsps.o lookup_util.o lookup_wrap.o matrix_freq_ratios.o ncbi_std.o ncbi_math.o blast_encoding.o pattern.o phi_extend.o phi_gapalign.o phi_lookup.o blast_parameters.o blast_posit.o blast_program.o blast_query_info.o blast_tune.o blast_sw.o blast_dynarray.o split_query.o gencode_singleton.o index_ungapped.o blast_traceback_mt_priv.o blast_hspstream_mt_utils.o boost_erf.o jumper.o hspfilter_mapper.o spliced_hits.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lcomposition_adjustment -lxconnect -ltables -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libblast.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libblast.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libblast.so -/bin/ln -f .blast.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.blast.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/core' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/core' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect/services' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect/services' @@ -17552,8 +17565,7 @@ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/services/grid_worker_app.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/wn_cleanup.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/grid_worker_impl.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/wn_commit_thread.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/wn_cleanup.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -17812,7 +17824,8 @@ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/services/grid_worker_app.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/wn_cleanup.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/wn_main_loop.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/grid_worker_impl.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/wn_commit_thread.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -17960,7 +17973,7 @@ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/services/grid_worker_app.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/wn_cleanup.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/wn_cleanup.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/wn_offline_mode.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -18257,7 +18270,7 @@ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/services/grid_worker_app.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/wn_cleanup.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/wn_offline_mode.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/wn_main_loop.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -18402,6 +18415,30 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/services/grid_worker_app.hpp:93:51: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 93 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ +-D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/jumper.c -o jumper.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/hspfilter_mapper.c -o hspfilter_mapper.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/spliced_hits.c -o spliced_hits.o +/bin/rm -f libblast.so .libblast.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libblast.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC aa_ungapped.o blast_diagnostics.o blast_engine.o blast_extend.o blast_filter.o blast_gapalign.o blast_hits.o blast_hspstream.o blast_itree.o blast_kappa.o blast_lookup.o blast_aalookup.o blast_aascan.o blast_nalookup.o blast_nascan.o blast_message.o blast_options.o blast_psi.o na_ungapped.o blast_psi_priv.o blast_seg.o blast_seqsrc.o blast_setup.o blast_stat.o blast_traceback.o blast_util.o gapinfo.o greedy_align.o hspfilter_collector.o hspfilter_besthit.o hspfilter_culling.o link_hsps.o lookup_util.o lookup_wrap.o matrix_freq_ratios.o ncbi_std.o ncbi_math.o blast_encoding.o pattern.o phi_extend.o phi_gapalign.o phi_lookup.o blast_parameters.o blast_posit.o blast_program.o blast_query_info.o blast_tune.o blast_sw.o blast_dynarray.o split_query.o gencode_singleton.o index_ungapped.o blast_traceback_mt_priv.o blast_hspstream_mt_utils.o boost_erf.o jumper.o hspfilter_mapper.o spliced_hits.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lcomposition_adjustment -lxconnect -ltables -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libblast.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libblast.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libblast.so +/bin/ln -f .blast.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.blast.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/core' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/core' + +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/compress/api/lzo.cpp -o lzo.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/compress/api/reader_zlib.cpp -o reader_zlib.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/compress/api/tar.cpp -o tar.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/compress/api/archive.cpp -o archive.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/compress/api/archive_.cpp -o archive_.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/compress/api/archive_zip.cpp -o archive_zip.o +/bin/rm -f libxcompress.so .libxcompress.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libxcompress.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC compress.o stream.o streambuf.o stream_util.o bzip2.o zlib.o lzo.o reader_zlib.o tar.o archive.o archive_.o archive_zip.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxutil -lxncbi -lbz2 -lz -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libxcompress.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libxcompress.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libxcompress.so +/bin/ln -f .xcompress.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.xcompress.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/api' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/api' onnect/services/wn_commit_thread.cpp -o wn_commit_thread.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/wn_main_loop.cpp -o wn_main_loop.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/wn_cleanup.cpp -o wn_cleanup.o @@ -18409,13 +18446,7 @@ /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/grid_control_thread.cpp -o grid_control_thread.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/grid_globals.cpp -o grid_globals.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/grid_rw_impl.cpp -o grid_rw_impl.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/remote_app.cpp -o remote_app.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/srv_connections.cpp -o srv_connections.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netservice_api.cpp -o netservice_api.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netservice_params.cpp -o netservice_params.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netschedule_api.cpp -o netschedule_api.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netschedule_api_submitter.cpp -o netschedule_api_submitter.o -/usr/bin/g++ -std=gnu++14 -+/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/serializable.cpp -o serializable.o ++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/serializable.cpp -o serializable.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/serialobject.cpp -o serialobject.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/pathhook.cpp -o pathhook.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/rpcbase.cpp -o rpcbase.o @@ -18429,7 +18460,13 @@ cd serial/datatool/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=datatool LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial/datatool' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial/datatool' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/remote_app.cpp -o remote_app.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/srv_connections.cpp -o srv_connections.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netservice_api.cpp -o netservice_api.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netservice_params.cpp -o netservice_params.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netschedule_api.cpp -o netschedule_api.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netschedule_api_submitter.cpp -o netschedule_api_submitter.o +/usr/bin/g++ -std=gnu++14 -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial/datatool' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial/datatool' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial/datatool' @@ -18443,7 +18480,13 @@ /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/namespace.cpp -o namespace.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/statictype.cpp -o statictype.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/enumtype.cpp -o enumtype.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/reftype.cpp -o reftype.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/unitype.cpp -o unitype.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/blocktype.cpp -o blocktype.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/choicetype.cpp -o choicetype.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/typestr.cpp -o typestr.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/ptrstr.cpp -o ptrstr.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/datatool.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/type.cpp:49: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] @@ -18554,13 +18597,7 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/reftype.cpp -o reftype.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/unitype.cpp -o unitype.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/blocktype.cpp -o blocktype.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/choicetype.cpp -o choicetype.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/typestr.cpp -o typestr.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/ptrstr.cpp -o ptrstr.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/datatool.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/datatool.cpp:59: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] @@ -18820,6 +18857,21 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/services/grid_worker_app.hpp:93:51: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 93 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/reftype.cpp:43: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/type.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/reftype.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/reftype.cpp:33: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/datatool.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/classstr.cpp:33: @@ -18931,9 +18983,7 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/reftype.cpp:43: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/statictype.cpp:41: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ @@ -18941,18 +18991,11 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/type.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/reftype.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/reftype.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/exceptions.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/statictype.cpp:33: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netschedule_api_executor.cpp -o netschedule_api_executor.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netschedule_api_reader.cpp -o netschedule_api_reader.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netschedule_api_admin.cpp -o netschedule_api_admin.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netschedule_api_getjob.cpp -o netschedule_api_getjob.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netschedule_key.cpp -o netschedule_key.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netschedule_api_expt.cpp -o netschedule_api_expt.o In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/datatool.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/choicestr.cpp:35: @@ -19064,18 +19107,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/unitype.cpp:33: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:35: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/datatool.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/choiceptrstr.cpp:36: @@ -19187,7 +19218,7 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/statictype.cpp:41: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/unitype.cpp:33: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ @@ -19195,11 +19226,16 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/exceptions.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/statictype.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:35: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netschedule_api_executor.cpp -o netschedule_api_executor.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netschedule_api_reader.cpp -o netschedule_api_reader.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netschedule_api_admin.cpp -o netschedule_api_admin.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netschedule_api_getjob.cpp -o netschedule_api_getjob.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netschedule_key.cpp -o netschedule_key.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netschedule_api_expt.cpp -o netschedule_api_expt.o producible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/stdstr.cpp -o stdstr.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/classstr.cpp -o classstr.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/enumstr.cpp -o enumstr.o @@ -19328,34 +19364,34 @@ /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/moduleset.cpp -o moduleset.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/generate.cpp -o generate.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/filecode.cpp -o filecode.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -Ipthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netservice_protocol_parser.cpp -o netservice_protocol_parser.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/util.cpp -o util.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/clparser.cpp -o clparser.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/json_over_uttp.cpp -o json_over_uttp.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netstorage.cpp -o netstorage.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netstorage_rpc.cpp -o netstorage_rpc.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/n/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/code.cpp -o code.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/code.cpp -o code.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/fileutil.cpp -o fileutil.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/alexer.cpp -o alexer.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/aparser.cpp -o aparser.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/parser.cpp -o parser.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/lexer.cpp -o lexer.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/exceptions.cpp -o exceptions.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netservice_protocol_parser.cpp -o netservice_protocol_parser.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/util.cpp -o util.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/clparser.cpp -o clparser.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/json_over_uttp.cpp -o json_over_uttp.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netstorage.cpp -o netstorage.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netstorage_rpc.cpp -o netstorage_rpc.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/nTHREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/exceptions.cpp -o exceptions.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/comments.cpp -o comments.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/srcutil.cpp -o srcutil.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/dtdaux.cpp -o dtdaux.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/dtdlexer.cpp -o dtdlexer.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/dtdparser.cpp -o dtdparser.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_F/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netstorage_rpc.cpp: In constructor 'ncbi::CSendJsonOverSocket::CSendJsonOverSocket(ncbi::CSocket&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netstorage_rpc.cpp:115:55: warning: member 'ncbi::CSendJsonOverSocket::m_UTTPWriter' is used uninitialized [-Wuninitialized] + 115 | CSendJsonOverSocket(CSocket& sock) : m_JSONWriter(m_UTTPWriter), m_Socket(sock) {} + | ^~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/datatool.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/aliasstr.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netstorage_rpc.cpp: In constructor 'ncbi::CSendJsonOverSocket::CSendJsonOverSocket(ncbi::CSocket&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netstorage_rpc.cpp:115:55: warning: member 'ncbi::CSendJsonOverSocket::m_UTTPWriter' is used uninitialized [-Wuninitialized] - 115 | CSendJsonOverSocket(CSocket& sock) : m_JSONWriter(m_UTTPWriter), m_Socket(sock) {} - | ^~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ @@ -19572,13 +19608,7 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -cbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netstorageobjectloc.cpp -o netstorageobjectloc.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netstorageobjectinfo.cpp -o netstorageobjectinfo.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netstorage_direct_nc.cpp -o netstorage_direct_nc.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/ns_output_parser.cpp -o ns_output_parser.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/ns_job_serializer.cpp -o ns_job_serializer.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/compound_id.cpp -o compound_id.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.1In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/datatool.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/wsdlparser.cpp:39: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] @@ -19695,7 +19725,13 @@ /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/xsdparser.cpp -o xsdparser.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/wsdllexer.cpp -o wsdllexer.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/wsdlparser.cpp -o wsdlparser.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/wsdlstr.cpp -o wsdlstr.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=cbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netstorageobjectloc.cpp -o netstorageobjectloc.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netstorageobjectinfo.cpp -o netstorageobjectinfo.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netstorage_direct_nc.cpp -o netstorage_direct_nc.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/ns_output_parser.cpp -o ns_output_parser.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/ns_job_serializer.cpp -o ns_job_serializer.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/compound_id.cpp -o compound_id.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.164 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/wsdlstr.cpp -o wsdlstr.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/jsdlexer.cpp -o jsdlexer.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/jsdparser.cpp -o jsdparser.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/traversal_pattern_match_callback.cpp -o traversal_pattern_match_callback.o @@ -19709,7 +19745,6 @@ /bin/ln -f libxconnserv.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libxconnserv.so /bin/ln -f .xconnserv.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.xconnserv.dep make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect/services' -awk: cannot open "make_xconnserv.log.new" (No such file or directory) make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect/services' ong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/traversal_node.cpp -o traversal_node.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/traversal_spec_file_parser.cpp -o traversal_spec_file_parser.o @@ -19724,47 +19759,47 @@ cd objects/pub/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources cd objects/seqcode/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources cd objects/seq/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +cd objects/seqset/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +cd objects/scoremat/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/general' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -cd objects/seqset/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +cd objects/blast/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +cd objects/blastdb/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/biblio' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medline' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/pub' make[4]: warning: -j12 forced in submake: resetting jobserver mode. +cd objects/genomecoll/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqcode' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -cd objects/scoremat/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seq' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medline' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -cd objects/blast/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqset' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -cd objects/blastdb/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -cd objects/genomecoll/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seq' make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/scoremat' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -cd objects/seqedit/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastdb' make[4]: warning: -j12 forced in submake: resetting jobserver mode. +cd objects/seqedit/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/genomecoll' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/general && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh general all -cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/medline && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh medline all make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqedit' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/biblio && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh biblio all cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/pub && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh pub all -cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blast && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh blast all +cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/biblio && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh biblio all cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqcode && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh seqcode all +cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqset && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh seqset all cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/scoremat && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh scoremat all +cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blast && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh blast all +cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/general && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh general all +cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/medline && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh medline all +cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/genomecoll && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh genome_collection all cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastdb && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh blastdb all -cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqset && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh seqset all cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqedit && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh seqedit all -cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/genomecoll && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh genome_collection all make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seq' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seq' @@ -19781,20 +19816,21 @@ make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=blastdb MODULE_PATH=objects/blastdb MODULE_ASN=blastdb.asn MODULE_IMPORT='objects/seqloc/seqloc' IMPDEPS='/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqloc/seqloc.asn' IMPFILES='objects/seqloc/seqloc.asn' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastdb' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ - -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m blastdb.asn -M "objects/seqloc/seqloc.asn" -oA \ - -oc blastdb -or objects/blastdb -odi -od blastdb.def -oex '' \ - -ocvs -pch 'ncbi_pch.hpp' -fd blastdb.dump \ - -datatool: 2.20.1 -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastdb' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastdb' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastdb' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +/usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=seqcode MODULE_PATH=objects/seqcode MODULE_ASN=seqcode.asn MODULE_IMPORT='' IMPDEPS='' IMPFILES='' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqcode' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ + -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m seqcode.asn -M "" -oA \ + -oc seqcode -or objects/seqcode -odi -od seqcode.def -oex '' \ + -ocvs -pch 'ncbi_pch.hpp' -fd seqcode.dump \ + +datatool: 2.20.1 +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqcode' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqcode' make[5]: warning: -j12 forced in submake: resetting jobserver mode. /usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=general MODULE_PATH=objects/general MODULE_ASN=general.asn MODULE_IMPORT='' IMPDEPS='' IMPFILES='' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/general' @@ -19805,32 +19841,6 @@ datatool: 2.20.1 make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/general' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/general' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/general' -/usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=biblio MODULE_PATH=objects/biblio MODULE_ASN=biblio.asn MODULE_IMPORT='objects/general/general' IMPDEPS='/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/general/general.asn' IMPFILES='objects/general/general.asn' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/biblio' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ - -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m biblio.asn -M "objects/general/general.asn" -oA \ - -oc biblio -or objects/biblio -odi -od biblio.def -oex '' \ - -ocvs -pch 'ncbi_pch.hpp' -fd biblio.dump \ - -datatool: 2.20.1 -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/biblio' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/biblio' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[7]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastdb' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastdb' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastdb' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/biblio' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastdb' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/general' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. /usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=medline MODULE_PATH=objects/medline MODULE_ASN=medline.asn MODULE_IMPORT='objects/general/general objects/biblio/biblio' IMPDEPS='/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/general/general.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/biblio/biblio.asn' IMPFILES='objects/general/general.asn objects/biblio/biblio.asn' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/medline' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ @@ -19840,12 +19850,7 @@ datatool: 2.20.1 make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/medline' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/general' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/biblio' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/medline' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/biblio' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqcode' /usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=seqset MODULE_PATH=objects/seqset MODULE_ASN=seqset.asn MODULE_IMPORT='objects/general/general objects/biblio/biblio objects/medline/medline objects/seq/seq' IMPDEPS='/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/general/general.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/biblio/biblio.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/medline/medline.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/seq.asn' IMPFILES='objects/general/general.asn objects/biblio/biblio.asn objects/medline/medline.asn objects/seq/seq.asn' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqset' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ @@ -19855,29 +19860,6 @@ datatool: 2.20.1 make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqset' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/general' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/general' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqset' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/medline' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/biblio' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/biblio' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medline' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqset' -/usr/bin/make[4] (Makefile.blastdb.lib): Nothing to be done for `export-headers'. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medline' -/usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=blast MODULE_PATH=objects/blast MODULE_ASN=blast.asn MODULE_IMPORT='objects/scoremat/scoremat objects/seq/seq objects/seqset/seqset objects/seqloc/seqloc objects/seqalign/seqalign' IMPDEPS='/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/scoremat/scoremat.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/seq.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqset/seqset.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqloc/seqloc.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqalign/seqalign.asn' IMPFILES='objects/scoremat/scoremat.asn objects/seq/seq.asn objects/seqset/seqset.asn objects/seqloc/seqloc.asn objects/seqalign/seqalign.asn' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blast' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ - -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m blast.asn -M "objects/scoremat/scoremat.asn objects/seq/seq.asn objects/seqset/seqset.asn objects/seqloc/seqloc.asn objects/seqalign/seqalign.asn" -oA \ - -oc blast -or objects/blast -odi -od blast.def -oex '' \ - -ocvs -pch 'ncbi_pch.hpp' -fd blast.dump \ - -datatool: 2.20.1 -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blast' /usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=scoremat MODULE_PATH=objects/scoremat MODULE_ASN=scoremat.asn MODULE_IMPORT='objects/seqset/seqset objects/general/general' IMPDEPS='/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqset/seqset.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/general/general.asn' IMPFILES='objects/seqset/seqset.asn objects/general/general.asn' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/scoremat' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ @@ -19887,22 +19869,38 @@ datatool: 2.20.1 make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/scoremat' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqset' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/medline' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=seqedit MODULE_PATH=objects/seqedit MODULE_ASN=seqedit.asn MODULE_IMPORT='objects/general/general objects/seqloc/seqloc objects/seqset/seqset objects/seq/seq objects/seqalign/seqalign objects/seqfeat/seqfeat objects/seqres/seqres' IMPDEPS='/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/general/general.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqloc/seqloc.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqset/seqset.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/seq.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqalign/seqalign.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqfeat/seqfeat.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqres/seqres.asn' IMPFILES='objects/general/general.asn objects/seqloc/seqloc.asn objects/seqset/seqset.asn objects/seq/seq.asn objects/seqalign/seqalign.asn objects/seqfeat/seqfeat.asn objects/seqres/seqres.asn' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqedit' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/general' +/usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=blastdb MODULE_PATH=objects/blastdb MODULE_ASN=blastdb.asn MODULE_IMPORT='objects/seqloc/seqloc' IMPDEPS='/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqloc/seqloc.asn' IMPFILES='objects/seqloc/seqloc.asn' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastdb' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ - -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m seqedit.asn -M "objects/general/general.asn objects/seqloc/seqloc.asn objects/seqset/seqset.asn objects/seq/seq.asn objects/seqalign/seqalign.asn objects/seqfeat/seqfeat.asn objects/seqres/seqres.asn" -oA \ - -oc seqedit -or objects/seqedit -odi -od seqedit.def -oex '' \ - -ocvs -pch 'ncbi_pch.hpp' -fd seqedit.dump \ + -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m blastdb.asn -M "objects/seqloc/seqloc.asn" -oA \ + -oc blastdb -or objects/blastdb -odi -od blastdb.def -oex '' \ + -ocvs -pch 'ncbi_pch.hpp' -fd blastdb.dump \ datatool: 2.20.1 -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqedit' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medline' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastdb' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blast' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqset' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqset' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/scoremat' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastdb' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqcode' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +/usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=pub MODULE_PATH=objects/pub MODULE_ASN=pub.asn MODULE_IMPORT='objects/general/general objects/biblio/biblio objects/medline/medline' IMPDEPS='/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/general/general.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/biblio/biblio.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/medline/medline.asn' IMPFILES='objects/general/general.asn objects/biblio/biblio.asn objects/medline/medline.asn' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/pub' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ + -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m pub.asn -M "objects/general/general.asn objects/biblio/biblio.asn objects/medline/medline.asn" -oA \ + -oc pub -or objects/pub -odi -od pub.def -oex '' \ + -ocvs -pch 'ncbi_pch.hpp' -fd pub.dump \ + +datatool: 2.20.1 +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/pub' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/medline' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/general' /usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=genome_collection MODULE_PATH=objects/genomecoll MODULE_ASN=genome_collection.asn MODULE_IMPORT='objects/general/general objects/seqloc/seqloc objects/seqfeat/seqfeat objects/seq/seq' IMPDEPS='/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/general/general.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqloc/seqloc.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqfeat/seqfeat.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/seq.asn' IMPFILES='objects/general/general.asn objects/seqloc/seqloc.asn objects/seqfeat/seqfeat.asn objects/seq/seq.asn' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/genomecoll' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ @@ -19912,89 +19910,126 @@ datatool: 2.20.1 make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/genomecoll' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/scoremat' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqset' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqcode' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/scoremat' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/genomecoll' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqcode' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medline' -/usr/bin/make[4] (Makefile.biblio.lib): Nothing to be done for `export-headers'. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqedit' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/general' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqset' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastdb' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medline' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/genomecoll' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=pub MODULE_PATH=objects/pub MODULE_ASN=pub.asn MODULE_IMPORT='objects/general/general objects/biblio/biblio objects/medline/medline' IMPDEPS='/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/general/general.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/biblio/biblio.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/medline/medline.asn' IMPFILES='objects/general/general.asn objects/biblio/biblio.asn objects/medline/medline.asn' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqset' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/pub' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqcode' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/general' +make[7]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medline' +/usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=biblio MODULE_PATH=objects/biblio MODULE_ASN=biblio.asn MODULE_IMPORT='objects/general/general' IMPDEPS='/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/general/general.asn' IMPFILES='objects/general/general.asn' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/biblio' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ - -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m pub.asn -M "objects/general/general.asn objects/biblio/biblio.asn objects/medline/medline.asn" -oA \ - -oc pub -or objects/pub -odi -od pub.def -oex '' \ - -ocvs -pch 'ncbi_pch.hpp' -fd pub.dump \ + -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m biblio.asn -M "objects/general/general.asn" -oA \ + -oc biblio -or objects/biblio -odi -od biblio.def -oex '' \ + -ocvs -pch 'ncbi_pch.hpp' -fd biblio.dump \ datatool: 2.20.1 -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/pub' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/biblio' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqset' -/usr/bin/make[4] (Makefile.general.lib): Nothing to be done for `export-headers'. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blast' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/pub' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/general' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=seqcode MODULE_PATH=objects/seqcode MODULE_ASN=seqcode.asn MODULE_IMPORT='' IMPDEPS='' IMPFILES='' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqcode' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ - -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m seqcode.asn -M "" -oA \ - -oc seqcode -or objects/seqcode -odi -od seqcode.def -oex '' \ - -ocvs -pch 'ncbi_pch.hpp' -fd seqcode.dump \ - -datatool: 2.20.1 -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqcode' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/scoremat' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/genomecoll' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqcode' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastdb' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqedit' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medline' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make[4] (Makefile.medline.lib): Nothing to be done for `export-headers'. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqset' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/general' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/biblio' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/genomecoll' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/pub' -cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/genomecoll && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh gencoll_client all make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/scoremat' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastdb' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medline' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqset' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/scoremat' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqedit' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' +cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/genomecoll && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh gencoll_client all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastdb' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqcode' -/usr/bin/make[4] (Makefile.seqset.lib): Nothing to be done for `export-headers'. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastdb' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/biblio' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/pub' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/scoremat' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqedit' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/pub' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' +/usr/bin/make[4] (Makefile.seqcode.lib): Nothing to be done for `export-headers'. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/scoremat' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqedit' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/pub' -Waiting for /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/genomecoll/make_asn.lockmake[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqedit' +/usr/bin/make[4] (Makefile.general.lib): Nothing to be done for `export-headers'. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/pub' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqcode' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqcode' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/pub' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqcode' +/usr/bin/make[4] (Makefile.seqset.lib): Nothing to be done for `export-headers'. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/biblio' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make[4] (Makefile.blast.lib): Nothing to be done for `export-headers'. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqcode' +/usr/bin/make[4] (Makefile.medline.lib): Nothing to be done for `export-headers'. +Waiting for /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/genomecoll/make_asn.lock/usr/bin/make[4] (Makefile.blastdb.lib): Nothing to be done for `export-headers'. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/biblio' +/usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=seqedit MODULE_PATH=objects/seqedit MODULE_ASN=seqedit.asn MODULE_IMPORT='objects/general/general objects/seqloc/seqloc objects/seqset/seqset objects/seq/seq objects/seqalign/seqalign objects/seqfeat/seqfeat objects/seqres/seqres' IMPDEPS='/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/general/general.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqloc/seqloc.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqset/seqset.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/seq.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqalign/seqalign.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqfeat/seqfeat.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqres/seqres.asn' IMPFILES='objects/general/general.asn objects/seqloc/seqloc.asn objects/seqset/seqset.asn objects/seq/seq.asn objects/seqalign/seqalign.asn objects/seqfeat/seqfeat.asn objects/seqres/seqres.asn' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqedit' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ + -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m seqedit.asn -M "objects/general/general.asn objects/seqloc/seqloc.asn objects/seqset/seqset.asn objects/seq/seq.asn objects/seqalign/seqalign.asn objects/seqfeat/seqfeat.asn objects/seqres/seqres.asn" -oA \ + -oc seqedit -or objects/seqedit -odi -od seqedit.def -oex '' \ + -ocvs -pch 'ncbi_pch.hpp' -fd seqedit.dump \ + +datatool: 2.20.1 +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqedit' /usr/bin/make[4] (Makefile.scoremat.lib): Nothing to be done for `export-headers'. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/biblio' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make[4] (Makefile.seqedit.lib): Nothing to be done for `export-headers'. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqedit' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/biblio' /usr/bin/make[4] (Makefile.pub.lib): Nothing to be done for `export-headers'. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqedit' +/usr/bin/make[4] (Makefile.biblio.lib): Nothing to be done for `export-headers'. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqedit' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqedit' +/usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=blast MODULE_PATH=objects/blast MODULE_ASN=blast.asn MODULE_IMPORT='objects/scoremat/scoremat objects/seq/seq objects/seqset/seqset objects/seqloc/seqloc objects/seqalign/seqalign' IMPDEPS='/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/scoremat/scoremat.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/seq.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqset/seqset.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqloc/seqloc.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqalign/seqalign.asn' IMPFILES='objects/scoremat/scoremat.asn objects/seq/seq.asn objects/seqset/seqset.asn objects/seqloc/seqloc.asn objects/seqalign/seqalign.asn' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blast' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ + -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m blast.asn -M "objects/scoremat/scoremat.asn objects/seq/seq.asn objects/seqset/seqset.asn objects/seqloc/seqloc.asn objects/seqalign/seqalign.asn" -oA \ + -oc blast -or objects/blast -odi -od blast.def -oex '' \ + -ocvs -pch 'ncbi_pch.hpp' -fd blast.dump \ + +datatool: 2.20.1 +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blast' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqedit' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqedit' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blast' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blast' +/usr/bin/make[4] (Makefile.seqedit.lib): Nothing to be done for `export-headers'. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' +/usr/bin/make[4] (Makefile.blast.lib): Nothing to be done for `export-headers'. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make[4] (Makefile.seqcode.lib): Nothing to be done for `export-headers'. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' /usr/bin/make[4] (Makefile.xnetblastcli.lib): Nothing to be done for `export-headers'. make[7]: warning: -j12 forced in submake: resetting jobserver mode. @@ -20051,55 +20086,55 @@ make[7]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqloc' /usr/bin/make -w -j12 --jobserver-auth=12,14 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=seqres MODULE_PATH=objects/seqres MODULE_ASN=seqres.asn MODULE_IMPORT='objects/general/general objects/biblio/biblio objects/medline/medline objects/seqloc/seqloc' IMPDEPS='/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/general/general.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/biblio/biblio.asn /build/reproducible-path/ncbmake[7]: warning: -j12 forced in submake: resetting jobserver mode. make[7]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medline' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/biblio' cd objects/seqsplit/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' +cd objects/submit/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqsplit' make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/general' make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/scoremat' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastdb' -cd objects/submit/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources cd objects/variation/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/submit' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' +cd objects/id1/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medline' +cd objects/id2/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/pub' make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/variation' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -cd objects/id1/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqsplit && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh seqsplit all make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id1' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqset' -cd objects/id2/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/biblio' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqcode' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqedit' cd objects/taxon1/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/submit && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh submit all +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastdb' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqset' make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id2' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/general' +cd objects/blastxml/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +cd objects/blastxml2/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +cd objtools/eutils/egquery/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' -cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/variation && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh variation all make[4]: warning: -j12 forced in submake: resetting jobserver mode. -cd objects/blastxml/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/id1 && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh id1 all +cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqsplit && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh seqsplit all +cd objtools/eutils/ehistory/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqedit' -cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/id2 && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh id2 all -cd objects/blastxml2/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon1 && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh taxon1 all make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml2' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/pub' -cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastxml && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh blastxml all -cd objtools/eutils/egquery/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/egquery' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqcode' -cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastxml2 && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh blastxml2 all -cd objtools/eutils/ehistory/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/ehistory' make[4]: warning: -j12 forced in submake: resetting jobserver mode. +cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/submit && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh submit all +cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/id1 && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh id1 all +cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/variation && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh variation all +cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/id2 && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh id2 all +cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon1 && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh taxon1 all +cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastxml2 && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh blastxml2 all cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/egquery && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh --dtd egquery all +cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastxml && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh blastxml all cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/ehistory && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh --dtd ehistory all make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: warning: -j12 forced in submake: resetting jobserver mode. @@ -20110,16 +20145,56 @@ make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: warning: -j12 forced in submake: resetting jobserver mode. +.make[5]: warning: -j12 forced in submake: resetting jobserver mode. +File blastxml.module not found. Using defaults... +/usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=blastxml MODULE_PATH=objects/blastxml MODULE_ASN=blastxml.asn MODULE_IMPORT='' IMPDEPS='' IMPFILES='' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastxml' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ + -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m blastxml.asn -M "" -oA \ + -oc blastxml -or objects/blastxml -odi -od blastxml.def -oex '' \ + -ocvs -pch 'ncbi_pch.hpp' -fd blastxml.dump \ + +datatool: 2.20.1 +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastxml' + +Acquired /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/genomecoll/make_asn.lock for PID 2185067 (make_asn) +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastxml' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=variation MODULE_PATH=objects/variation MODULE_ASN=variation.asn MODULE_IMPORT='objects/seqfeat/seqfeat objects/general/general objects/seqloc/seqloc objects/pub/pub objects/seq/seq' IMPDEPS='/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqfeat/seqfeat.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/general/general.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqloc/seqloc.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/pub/pub.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/seq.asn' IMPFILES='objects/seqfeat/seqfeat.asn objects/general/general.asn objects/seqloc/seqloc.asn objects/pub/pub.asn objects/seq/seq.asn' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/variation' +File ehistory.module not found. Using defaults... +/usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=ehistory MODULE_PATH=objtools/eutils/ehistory MODULE_ASN=ehistory.dtd MODULE_IMPORT='' IMPDEPS='' IMPFILES='' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/ehistory' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ - -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m variation.asn -M "objects/seqfeat/seqfeat.asn objects/general/general.asn objects/seqloc/seqloc.asn objects/pub/pub.asn objects/seq/seq.asn" -oA \ - -oc variation -or objects/variation -odi -od variation.def -oex '' \ - -ocvs -pch 'ncbi_pch.hpp' -fd variation.dump \ + -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m ehistory.dtd -M "" -oA \ + -oc ehistory -or objtools/eutils/ehistory -odi -od ehistory.def -oex '' \ + -ocvs -pch 'ncbi_pch.hpp' -fd ehistory.dump \ datatool: 2.20.1 -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/variation' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/ehistory' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastxml' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/ehistory' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +File egquery.module not found. Using defaults... +/usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=egquery MODULE_PATH=objtools/eutils/egquery MODULE_ASN=egquery.dtd MODULE_IMPORT='' IMPDEPS='' IMPFILES='' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/egquery' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ + -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m egquery.dtd -M "" -oA \ + -oc egquery -or objtools/eutils/egquery -odi -od egquery.def -oex '' \ + -ocvs -pch 'ncbi_pch.hpp' -fd egquery.dump \ + +datatool: 2.20.1 +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/egquery' +File blastxml2.module not found. Using defaults... +/usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=blastxml2 MODULE_PATH=objects/blastxml2 MODULE_ASN=blastxml2.asn MODULE_IMPORT='' IMPDEPS='' IMPFILES='' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastxml2' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ + -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m blastxml2.asn -M "" -oA \ + -oc blastxml2 -or objects/blastxml2 -odi -od blastxml2.def -oex '' \ + -ocvs -pch 'ncbi_pch.hpp' -fd blastxml2.dump \ + +datatool: 2.20.1 +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastxml2' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/egquery' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. /usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=submit MODULE_PATH=objects/submit MODULE_ASN=submit.asn MODULE_IMPORT='objects/general/general objects/biblio/biblio objects/seq/seq objects/seqset/seqset objects/seqloc/seqloc' IMPDEPS='/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/general/general.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/biblio/biblio.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/seq.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqset/seqset.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqloc/seqloc.asn' IMPFILES='objects/general/general.asn objects/biblio/biblio.asn objects/seq/seq.asn objects/seqset/seqset.asn objects/seqloc/seqloc.asn' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/submit' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ @@ -20129,17 +20204,21 @@ datatool: 2.20.1 make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/submit' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/variation' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastxml2' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/ehistory' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/submit' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/egquery' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastxml2' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/ehistory' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=id1 MODULE_PATH=objects/id1 MODULE_ASN=id1.asn MODULE_IMPORT='objects/seqloc/seqloc objects/seqset/seqset objects/seq/seq' IMPDEPS='/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqloc/seqloc.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqset/seqset.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/seq.asn' IMPFILES='objects/seqloc/seqloc.asn objects/seqset/seqset.asn objects/seq/seq.asn' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/id1' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ - -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m id1.asn -M "objects/seqloc/seqloc.asn objects/seqset/seqset.asn objects/seq/seq.asn" -oA \ - -oc id1 -or objects/id1 -odi -od id1.def -oex '' \ - -ocvs -pch 'ncbi_pch.hpp' -fd id1.dump \ - -datatool: 2.20.1 -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/id1' /usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=seqsplit MODULE_PATH=objects/seqsplit MODULE_ASN=seqsplit.asn MODULE_IMPORT='objects/seqloc/seqloc objects/seqset/seqset objects/seq/seq objects/seqalign/seqalign objects/seqfeat/seqfeat' IMPDEPS='/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqloc/seqloc.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqset/seqset.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/seq.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqalign/seqalign.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqfeat/seqfeat.asn' IMPFILES='objects/seqloc/seqloc.asn objects/seqset/seqset.asn objects/seq/seq.asn objects/seqalign/seqalign.asn objects/seqfeat/seqfeat.asn' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqsplit' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ @@ -20149,47 +20228,40 @@ datatool: 2.20.1 make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqsplit' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/submit' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/submit' +/usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=id1 MODULE_PATH=objects/id1 MODULE_ASN=id1.asn MODULE_IMPORT='objects/seqloc/seqloc objects/seqset/seqset objects/seq/seq' IMPDEPS='/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqloc/seqloc.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqset/seqset.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/seq.asn' IMPFILES='objects/seqloc/seqloc.asn objects/seqset/seqset.asn objects/seq/seq.asn' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/id1' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqsplit' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=taxon1 MODULE_PATH=objects/taxon1 MODULE_ASN=taxon1.asn MODULE_IMPORT='objects/seqfeat/seqfeat' IMPDEPS='/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqfeat/seqfeat.asn' IMPFILES='objects/seqfeat/seqfeat.asn' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon1' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ - -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m taxon1.asn -M "objects/seqfeat/seqfeat.asn" -oA \ - -oc taxon1 -or objects/taxon1 -odi -od taxon1.def -oex '' \ - -ocvs -pch 'ncbi_pch.hpp' -fd taxon1.dump \ - -datatool: 2.20.1 -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon1' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/variation' -File blastxml.module not found. Using defaults... -/usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=blastxml MODULE_PATH=objects/blastxml MODULE_ASN=blastxml.asn MODULE_IMPORT='' IMPDEPS='' IMPFILES='' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastxml' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ - -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m blastxml.asn -M "" -oA \ - -oc blastxml -or objects/blastxml -odi -od blastxml.def -oex '' \ - -ocvs -pch 'ncbi_pch.hpp' -fd blastxml.dump \ + -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m id1.asn -M "objects/seqloc/seqloc.asn objects/seqset/seqset.asn objects/seq/seq.asn" -oA \ + -oc id1 -or objects/id1 -odi -od id1.def -oex '' \ + -ocvs -pch 'ncbi_pch.hpp' -fd id1.dump \ datatool: 2.20.1 -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastxml' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon1' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/submit' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/id1' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastxml' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/ehistory' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/egquery' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqsplit' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/variation' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqsplit' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml2' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/variation' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/submit' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon1' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id1' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/id1' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml2' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/ehistory' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/egquery' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/ehistory' +/usr/bin/make[4] (Makefile.blastxml.lib): Nothing to be done for `export-headers'. +/usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=variation MODULE_PATH=objects/variation MODULE_ASN=variation.asn MODULE_IMPORT='objects/seqfeat/seqfeat objects/general/general objects/seqloc/seqloc objects/pub/pub objects/seq/seq' IMPDEPS='/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqfeat/seqfeat.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/general/general.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqloc/seqloc.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/pub/pub.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/seq.asn' IMPFILES='objects/seqfeat/seqfeat.asn objects/general/general.asn objects/seqloc/seqloc.asn objects/pub/pub.asn objects/seq/seq.asn' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/variation' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ + -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m variation.asn -M "objects/seqfeat/seqfeat.asn objects/general/general.asn objects/seqloc/seqloc.asn objects/pub/pub.asn objects/seq/seq.asn" -oA \ + -oc variation -or objects/variation -odi -od variation.def -oex '' \ + -ocvs -pch 'ncbi_pch.hpp' -fd variation.dump \ + +datatool: 2.20.1 +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/variation' /usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=id2 MODULE_PATH=objects/id2 MODULE_ASN=id2.asn MODULE_IMPORT='objects/seqsplit/seqsplit objects/seqloc/seqloc' IMPDEPS='/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqsplit/seqsplit.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqloc/seqloc.asn' IMPFILES='objects/seqsplit/seqsplit.asn objects/seqloc/seqloc.asn' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/id2' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ @@ -20199,138 +20271,101 @@ datatool: 2.20.1 make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/id2' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/submit' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/variation' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/submit' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id1' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqsplit' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqsplit' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml2' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -File egquery.module not found. Using defaults... -/usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=egquery MODULE_PATH=objtools/eutils/egquery MODULE_ASN=egquery.dtd MODULE_IMPORT='' IMPDEPS='' IMPFILES='' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/egquery' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/egquery' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +/usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=taxon1 MODULE_PATH=objects/taxon1 MODULE_ASN=taxon1.asn MODULE_IMPORT='objects/seqfeat/seqfeat' IMPDEPS='/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqfeat/seqfeat.asn' IMPFILES='objects/seqfeat/seqfeat.asn' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon1' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ - -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m egquery.dtd -M "" -oA \ - -oc egquery -or objtools/eutils/egquery -odi -od egquery.def -oex '' \ - -ocvs -pch 'ncbi_pch.hpp' -fd egquery.dump \ + -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m taxon1.asn -M "objects/seqfeat/seqfeat.asn" -oA \ + -oc taxon1 -or objects/taxon1 -odi -od taxon1.def -oex '' \ + -ocvs -pch 'ncbi_pch.hpp' -fd taxon1.dump \ datatool: 2.20.1 -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/egquery' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/variation' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/submit' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqsplit' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/egquery' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon1' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/submit' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/variation' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/id2' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml2' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id1' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/egquery' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/submit' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/id1' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon1' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -File ehistory.module not found. Using defaults... -/usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=ehistory MODULE_PATH=objtools/eutils/ehistory MODULE_ASN=ehistory.dtd MODULE_IMPORT='' IMPDEPS='' IMPFILES='' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/ehistory' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ - -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m ehistory.dtd -M "" -oA \ - -oc ehistory -or objtools/eutils/ehistory -odi -od ehistory.def -oex '' \ - -ocvs -pch 'ncbi_pch.hpp' -fd ehistory.dump \ - -datatool: 2.20.1 -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/ehistory' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/submit' -File blastxml2.module not found. Using defaults... -/usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=blastxml2 MODULE_PATH=objects/blastxml2 MODULE_ASN=blastxml2.asn MODULE_IMPORT='' IMPDEPS='' IMPFILES='' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastxml2' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ - -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m blastxml2.asn -M "" -oA \ - -oc blastxml2 -or objects/blastxml2 -odi -od blastxml2.def -oex '' \ - -ocvs -pch 'ncbi_pch.hpp' -fd blastxml2.dump \ - -datatool: 2.20.1 -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastxml2' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqsplit' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id1' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastxml' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/ehistory' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/variation' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/id2' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqsplit' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon1' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqsplit' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastxml2' +/usr/bin/make[4] (Makefile.ehistory.lib): Nothing to be done for `export-headers'. +/usr/bin/make[4] (Makefile.blastxml2.lib): Nothing to be done for `export-headers'. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id1' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/variation' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqsplit' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/id2' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/egquery' -/usr/bin/make[4] (Makefile.variation.lib): Nothing to be done for `export-headers'. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -.make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/ehistory' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastxml2' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id1' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/variation' /usr/bin/make[4] (Makefile.submit.lib): Nothing to be done for `export-headers'. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id2' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make[4] (Makefile.id1.lib): Nothing to be done for `export-headers'. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id2' -/usr/bin/make[4] (Makefile.seqsplit.lib): Nothing to be done for `export-headers'. - -Acquired /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/genomecoll/make_asn.lock for PID 3290752 (make_asn) -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/ehistory' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/variation' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/egquery' +/usr/bin/make[4] (Makefile.egquery.lib): Nothing to be done for `export-headers'. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id1' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/variation' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id2' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id1' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/ehistory' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/egquery' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml2' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id1' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +/usr/bin/make[4] (Makefile.seqsplit.lib): Nothing to be done for `export-headers'. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id2' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' +/usr/bin/make[4] (Makefile.variation.lib): Nothing to be done for `export-headers'. +/usr/bin/make[4] (Makefile.id1.lib): Nothing to be done for `export-headers'. +/usr/bin/make[4] (Makefile.id2.lib): Nothing to be done for `export-headers'. /usr/bin/make[4] (Makefile.taxon1.lib): Nothing to be done for `export-headers'. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id1' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/egquery' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/ehistory' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml2' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/egquery' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/ehistory' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id1' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id1' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml2' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id2' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id1' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id1' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml2' -/usr/bin/make[4] (Makefile.id2.lib): Nothing to be done for `export-headers'. -/usr/bin/make[4] (Makefile.blastxml.lib): Nothing to be done for `export-headers'. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id2' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id1' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id2' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id2' make[5]: *** No rule to make target '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/SQLITE3.enabled', needed by 'requirements'. Stop. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' -/usr/bin/make[4] (Makefile.egquery.lib): Nothing to be done for `export-headers'. NOTE: skipping project "local_taxon" due to unmet requirements -/usr/bin/make[4] (Makefile.ehistory.lib): Nothing to be done for `export-headers'. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id2' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id2' /usr/bin/make[4] (Makefile.id1cli.lib): Nothing to be done for `export-headers'. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id2' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' -/usr/bin/make[4] (Makefile.blastxml2.lib): Nothing to be done for `export-headers'. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id2' /usr/bin/make[4] (Makefile.id2cli.lib): Nothing to be done for `export-headers'. make[5]: warning: -j12 forced in submake: resetting jobserver mode. /usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=gencoll_client MODULE_PATH=objects/genomecoll MODULE_ASN=gencoll_client.asn MODULE_IMPORT='objects/genomecoll/genome_collection' IMPDEPS='/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/genomecoll/genome_collection.asn' IMPFILES='objects/genomecoll/genome_collection.asn' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all @@ -20406,60 +20441,68 @@ /usr/bin/make[4] (Makefile.seq.lib): Nothing to be done for `export-headers'. make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqsplit' cd objtools/eutils/einfo/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/submit' make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/einfo' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id1' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/submit' cd objtools/eutils/elink/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/variation' -cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/einfo && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh --dtd einfo all +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id1' cd objects/entrez2/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -cd objtools/eutils/epost/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/elink' make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id2' +cd objtools/eutils/epost/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/variation' make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/entrez2' make[4]: warning: -j12 forced in submake: resetting jobserver mode. +cd objtools/eutils/esearch/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/einfo && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh --dtd einfo all make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/epost' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id2' -cd objtools/eutils/esearch/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml2' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/egquery' make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esearch' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' cd objtools/eutils/espell/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/entrez2 && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh entrez2 all +cd objtools/eutils/esummary/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/ehistory' cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/elink && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh --dtd elink all +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' +cd objtools/eutils/uilist/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +cd objects/gbseq/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/espell' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/epost && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh --dtd epost all -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml' -cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/esearch && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh --dtd esearch all -cd objtools/eutils/esummary/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esummary' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/espell && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh --dtd espell all -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml2' -cd objtools/eutils/uilist/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml' +cd objects/medlars/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/uilist' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/egquery' -cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/esummary && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh --dtd esummary all -cd objects/gbseq/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/gbseq' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/uilist && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh --dtd uilist all -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/ehistory' -cd objects/medlars/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/gbseq && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh gbseq all +cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/epost && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh --dtd epost all make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medlars' make[4]: warning: -j12 forced in submake: resetting jobserver mode. +cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/entrez2 && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh entrez2 all +cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/esearch && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh --dtd esearch all +cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/espell && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh --dtd espell all +cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/esummary && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh --dtd esummary all +cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/gbseq && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh gbseq all +cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/uilist && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh --dtd uilist all cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/medlars && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh medlars all make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/genomecoll' +cd objects/pubmed/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/pubmed' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/pubmed && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh pubmed all make[5]: warning: -j12 forced in submake: resetting jobserver mode. File einfo.module not found. Using defaults... /usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=einfo MODULE_PATH=objtools/eutils/einfo MODULE_ASN=einfo.dtd MODULE_IMPORT='' IMPDEPS='' IMPFILES='' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all @@ -20473,10 +20516,7 @@ make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/einfo' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/einfo' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/einfo' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/einfo' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. File epost.module not found. Using defaults... /usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=epost MODULE_PATH=objtools/eutils/epost MODULE_ASN=epost.dtd MODULE_IMPORT='' IMPDEPS='' IMPFILES='' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/epost' @@ -20487,28 +20527,62 @@ datatool: 2.20.1 make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/epost' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/einfo' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +File uilist.module not found. Using defaults... +/usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=uilist MODULE_PATH=objtools/eutils/uilist MODULE_ASN=uilist.dtd MODULE_IMPORT='' IMPDEPS='' IMPFILES='' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/uilist' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ + -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m uilist.dtd -M "" -oA \ + -oc uilist -or objtools/eutils/uilist -odi -od uilist.def -oex '' \ + -ocvs -pch 'ncbi_pch.hpp' -fd uilist.dump \ + +datatool: 2.20.1 +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/uilist' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/einfo' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/epost' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/uilist' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +File esearch.module not found. Using defaults... +/usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=esearch MODULE_PATH=objtools/eutils/esearch MODULE_ASN=esearch.dtd MODULE_IMPORT='' IMPDEPS='' IMPFILES='' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/esearch' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ + -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m esearch.dtd -M "" -oA \ + -oc esearch -or objtools/eutils/esearch -odi -od esearch.def -oex '' \ + -ocvs -pch 'ncbi_pch.hpp' -fd esearch.dump \ + +datatool: 2.20.1 +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/esearch' +/usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=medlars MODULE_PATH=objects/medlars MODULE_ASN=medlars.asn MODULE_IMPORT='objects/general/general objects/biblio/biblio' IMPDEPS='/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/general/general.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/biblio/biblio.asn' IMPFILES='objects/general/general.asn objects/biblio/biblio.asn' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/medlars' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ + -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m medlars.asn -M "objects/general/general.asn objects/biblio/biblio.asn" -oA \ + -oc medlars -or objects/medlars -odi -od medlars.def -oex '' \ + -ocvs -pch 'ncbi_pch.hpp' -fd medlars.dump \ + +datatool: 2.20.1 +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/medlars' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/einfo' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -File espell.module not found. Using defaults... -/usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=espell MODULE_PATH=objtools/eutils/espell MODULE_ASN=espell.dtd MODULE_IMPORT='' IMPDEPS='' IMPFILES='' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/espell' +File esummary.module not found. Using defaults... +/usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=esummary MODULE_PATH=objtools/eutils/esummary MODULE_ASN=esummary.dtd MODULE_IMPORT='' IMPDEPS='' IMPFILES='' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/esummary' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ - -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m espell.dtd -M "" -oA \ - -oc espell -or objtools/eutils/espell -odi -od espell.def -oex '' \ - -ocvs -pch 'ncbi_pch.hpp' -fd espell.dump \ + -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m esummary.dtd -M "" -oA \ + -oc esummary -or objtools/eutils/esummary -odi -od esummary.def -oex '' \ + -ocvs -pch 'ncbi_pch.hpp' -fd esummary.dump \ datatool: 2.20.1 -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/espell' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/esummary' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/epost' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/esearch' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/einfo' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/espell' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/medlars' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/esummary' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/epost' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/genomecoll' -cd objects/pubmed/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources File elink.module not found. Using defaults... /usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=elink MODULE_PATH=objtools/eutils/elink MODULE_ASN=elink.dtd MODULE_IMPORT='' IMPDEPS='' IMPFILES='' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/elink' @@ -20519,30 +20593,32 @@ datatool: 2.20.1 make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/elink' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/uilist' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/elink' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/pubmed' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/epost' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/espell' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/epost' -/usr/bin/make[4] (Makefile.einfo.lib): Nothing to be done for `export-headers'. -File uilist.module not found. Using defaults... -/usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=uilist MODULE_PATH=objtools/eutils/uilist MODULE_ASN=uilist.dtd MODULE_IMPORT='' IMPDEPS='' IMPFILES='' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/uilist' +File espell.module not found. Using defaults... +/usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=espell MODULE_PATH=objtools/eutils/espell MODULE_ASN=espell.dtd MODULE_IMPORT='' IMPDEPS='' IMPFILES='' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/espell' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ - -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m uilist.dtd -M "" -oA \ - -oc uilist -or objtools/eutils/uilist -odi -od uilist.def -oex '' \ - -ocvs -pch 'ncbi_pch.hpp' -fd uilist.dump \ + -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m espell.dtd -M "" -oA \ + -oc espell -or objtools/eutils/espell -odi -od espell.def -oex '' \ + -ocvs -pch 'ncbi_pch.hpp' -fd espell.dump \ datatool: 2.20.1 -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/uilist' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/elink' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/epost' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/espell' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/esearch' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/esummary' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/uilist' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/medlars' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/uilist' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +/usr/bin/make[4] (Makefile.einfo.lib): Nothing to be done for `export-headers'. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/epost' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/espell' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/uilist' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/elink' /usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=entrez2 MODULE_PATH=objects/entrez2 MODULE_ASN=entrez2.asn MODULE_IMPORT='' IMPDEPS='' IMPFILES='' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/entrez2' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ @@ -20552,128 +20628,87 @@ datatool: 2.20.1 make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/entrez2' +/usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=gbseq MODULE_PATH=objects/gbseq MODULE_ASN=gbseq.asn MODULE_IMPORT='' IMPDEPS='' IMPFILES='' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/gbseq' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ + -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m gbseq.asn -M "" -oA \ + -oc gbseq -or objects/gbseq -odi -od gbseq.def -oex '' \ + -ocvs -pch 'ncbi_pch.hpp' -fd gbseq.dump \ + +datatool: 2.20.1 +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/gbseq' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/uilist' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/epost' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esearch' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esummary' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medlars' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/epost' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/uilist' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esearch' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esummary' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/espell' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medlars' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/entrez2' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/espell' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/gbseq' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/elink' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esearch' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/espell' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/pubmed && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh pubmed all -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/espell' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/uilist' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/elink' -File esummary.module not found. Using defaults... -/usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=esummary MODULE_PATH=objtools/eutils/esummary MODULE_ASN=esummary.dtd MODULE_IMPORT='' IMPDEPS='' IMPFILES='' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/esummary' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ - -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m esummary.dtd -M "" -oA \ - -oc esummary -or objtools/eutils/esummary -odi -od esummary.def -oex '' \ - -ocvs -pch 'ncbi_pch.hpp' -fd esummary.dump \ - -datatool: 2.20.1 -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/esummary' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/entrez2' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/esummary' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esummary' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/espell' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/espell' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esummary' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esearch' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/gbseq' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/espell' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/elink' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medlars' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: warning: -j12 forced in submake: resetting jobserver mode. -File esearch.module not found. Using defaults... -/usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=esearch MODULE_PATH=objtools/eutils/esearch MODULE_ASN=esearch.dtd MODULE_IMPORT='' IMPDEPS='' IMPFILES='' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/esearch' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ - -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m esearch.dtd -M "" -oA \ - -oc esearch -or objtools/eutils/esearch -odi -od esearch.def -oex '' \ - -ocvs -pch 'ncbi_pch.hpp' -fd esearch.dump \ - -datatool: 2.20.1 -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/esearch' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/uilist' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/espell' +/usr/bin/make[4] (Makefile.uilist.lib): Nothing to be done for `export-headers'. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/entrez2' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/elink' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medlars' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/espell' /usr/bin/make[4] (Makefile.epost.lib): Nothing to be done for `export-headers'. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/entrez2' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/uilist' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/esearch' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/entrez2' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/uilist' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/gbseq' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/esummary' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/gbseq' +/usr/bin/make[4] (Makefile.esummary.lib): Nothing to be done for `export-headers'. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/entrez2' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/uilist' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/esearch' +/usr/bin/make[4] (Makefile.esearch.lib): Nothing to be done for `export-headers'. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/entrez2' -/usr/bin/make[4] (Makefile.espell.lib): Nothing to be done for `export-headers'. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esummary' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/gbseq' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/gbseq' +/usr/bin/make[4] (Makefile.medlars.lib): Nothing to be done for `export-headers'. +/usr/bin/make[4] (Makefile.espell.lib): Nothing to be done for `export-headers'. /usr/bin/make[4] (Makefile.elink.lib): Nothing to be done for `export-headers'. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esummary' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esearch' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esummary' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/entrez2' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esummary' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/entrez2' +/usr/bin/make[4] (Makefile.gbseq.lib): Nothing to be done for `export-headers'. /usr/bin/make[4] (Makefile.entrez2.lib): Nothing to be done for `export-headers'. -/usr/bin/make[4] (Makefile.uilist.lib): Nothing to be done for `export-headers'. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esearch' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esearch' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/entrez2' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esearch' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/entrez2' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/entrez2' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=gbseq MODULE_PATH=objects/gbseq MODULE_ASN=gbseq.asn MODULE_IMPORT='' IMPDEPS='' IMPFILES='' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/gbseq' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ - -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m gbseq.asn -M "" -oA \ - -oc gbseq -or objects/gbseq -odi -od gbseq.def -oex '' \ - -ocvs -pch 'ncbi_pch.hpp' -fd gbseq.dump \ - -datatool: 2.20.1 -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/gbseq' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/entrez2' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/gbseq' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make[4] (Makefile.esummary.lib): Nothing to be done for `export-headers'. -/usr/bin/make[4] (Makefile.esearch.lib): Nothing to be done for `export-headers'. -/usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=medlars MODULE_PATH=objects/medlars MODULE_ASN=medlars.asn MODULE_IMPORT='objects/general/general objects/biblio/biblio' IMPDEPS='/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/general/general.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/biblio/biblio.asn' IMPFILES='objects/general/general.asn objects/biblio/biblio.asn' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/medlars' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ - -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m medlars.asn -M "objects/general/general.asn objects/biblio/biblio.asn" -oA \ - -oc medlars -or objects/medlars -odi -od medlars.def -oex '' \ - -ocvs -pch 'ncbi_pch.hpp' -fd medlars.dump \ - -datatool: 2.20.1 -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/medlars' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/medlars' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/gbseq' /usr/bin/make[4] (Makefile.entrez2cli.lib): Nothing to be done for `export-headers'. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/gbseq' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/medlars' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/gbseq' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/gbseq' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medlars' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/gbseq' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medlars' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medlars' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medlars' -/usr/bin/make[4] (Makefile.gbseq.lib): Nothing to be done for `export-headers'. -/usr/bin/make[4] (Makefile.medlars.lib): Nothing to be done for `export-headers'. -make[5]: warning: -j12 forced in submake: resetting jobserver mode. /usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=pubmed MODULE_PATH=objects/pubmed MODULE_ASN=pubmed.asn MODULE_IMPORT='objects/general/general objects/biblio/biblio objects/medline/medline' IMPDEPS='/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/general/general.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/biblio/biblio.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/medline/medline.asn' IMPFILES='objects/general/general.asn objects/biblio/biblio.asn objects/medline/medline.asn' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/pubmed' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ @@ -20731,122 +20766,118 @@ make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/entrez2' cd objects/valid/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon3 && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh taxon3 all make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/valid' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/elink' +cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon3 && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh taxon3 all +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/epost' cd objects/general/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=general UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/elink' +cd objects/seqcode/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=seqcode UNIX_PROJ="" sources= configurables=configurables.null +cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/valid && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh valid all make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/general' make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esearch' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/espell' -cd objects/seqcode/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=seqcode UNIX_PROJ="" sources= configurables=configurables.null cd objects/blastxml/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=blastxml UNIX_PROJ="" sources= configurables=configurables.null -cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/valid && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh valid all -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/epost' make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqcode' make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/espell' cd objects/blastxml2/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=blastxml2 UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml' make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml2' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/uilist' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/general' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/gbseq' cd objtools/eutils/egquery/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=egquery UNIX_PROJ="" sources= configurables=configurables.null -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/general' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/uilist' +cd objtools/eutils/ehistory/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=ehistory UNIX_PROJ="" sources= configurables=configurables.null make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esummary' make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/egquery' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -cd objtools/eutils/ehistory/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=ehistory UNIX_PROJ="" sources= configurables=configurables.null -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/general' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. +cd objtools/eutils/einfo/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=einfo UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medlars' +cd objtools/eutils/elink/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=elink UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/ehistory' make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/einfo' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/elink' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/general' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/general' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqcode' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml2' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqcode' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml2' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/general' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqcode' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/general' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqcode' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml2' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqcode' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml2' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/general TMPL=general -w -j12 --jobserver-auth=7,8 all -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/gbseq' -cd objtools/eutils/einfo/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=einfo UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/einfo' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medlars' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqcode TMPL=seqcode -w -j12 --jobserver-auth=7,8 all -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastxml TMPL=blastxml -w -j12 --jobserver-auth=7,8 all -cd objtools/eutils/elink/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=elink UNIX_PROJ="" sources= configurables=configurables.null -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastxml2 TMPL=blastxml2 -w -j12 --jobserver-auth=7,8 all -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/egquery' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/elink' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/egquery' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml2' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/ehistory' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml2' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/einfo' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/egquery' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/ehistory' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml2' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/egquery' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/einfo' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/ehistory' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/elink' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/general TMPL=general -w -j12 --jobserver-auth=7,8 all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/einfo' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/ehistory' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/egquery' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/elink' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/einfo' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqcode TMPL=seqcode -w -j12 --jobserver-auth=7,8 all +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/egquery' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/elink' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastxml TMPL=blastxml -w -j12 --jobserver-auth=7,8 all +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/elink' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastxml2 TMPL=blastxml2 -w -j12 --jobserver-auth=7,8 all /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/egquery TMPL=egquery -w -j12 --jobserver-auth=7,8 all /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/ehistory TMPL=ehistory -w -j12 --jobserver-auth=7,8 all +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/einfo TMPL=einfo -w -j12 --jobserver-auth=7,8 all +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/elink TMPL=elink -w -j12 --jobserver-auth=7,8 all make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/elink' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/elink' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/elink' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/elink' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/einfo' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/einfo' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/einfo' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/elink TMPL=elink -w -j12 --jobserver-auth=7,8 all make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/einfo' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/pubmed' cd objects/entrez2/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=entrez2 UNIX_PROJ="" sources= configurables=configurables.null -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/einfo TMPL=einfo -w -j12 --jobserver-auth=7,8 all make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=taxon3 MODULE_PATH=objects/taxon3 MODULE_ASN=taxon3.asn MODULE_IMPORT='objects/seqfeat/seqfeat' IMPDEPS='/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqfeat/seqfeat.asn' IMPFILES='objects/seqfeat/seqfeat.asn' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon3' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ - -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m taxon3.asn -M "objects/seqfeat/seqfeat.asn" -oA \ - -oc taxon3 -or objects/taxon3 -odi -od taxon3.def -oex '' \ - -ocvs -pch 'ncbi_pch.hpp' -fd taxon3.dump \ - -datatool: 2.20.1 -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon3' make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/entrez2' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon3' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon3' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/entrez2' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/entrez2' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/entrez2' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/entrez2' /usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=valid MODULE_PATH=objects/valid MODULE_ASN=valid.asn MODULE_IMPORT='' IMPDEPS='' IMPFILES='' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/valid' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ @@ -20858,31 +20889,35 @@ make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/valid' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/valid' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon3' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon3' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/entrez2 TMPL=entrez2 -w -j12 --jobserver-auth=7,8 all make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/valid' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon3' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon3' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/entrez2' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/entrez2' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/entrez2' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. +/usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=taxon3 MODULE_PATH=objects/taxon3 MODULE_ASN=taxon3.asn MODULE_IMPORT='objects/seqfeat/seqfeat' IMPDEPS='/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqfeat/seqfeat.asn' IMPFILES='objects/seqfeat/seqfeat.asn' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon3' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ + -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m taxon3.asn -M "objects/seqfeat/seqfeat.asn" -oA \ + -oc taxon3 -or objects/taxon3 -odi -od taxon3.def -oex '' \ + -ocvs -pch 'ncbi_pch.hpp' -fd taxon3.dump \ + +datatool: 2.20.1 +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon3' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/valid' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/entrez2' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon3' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/valid' -/usr/bin/make[4] (Makefile.taxon3.lib): Nothing to be done for `export-headers'. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/valid' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon3' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/valid' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/entrez2 TMPL=entrez2 -w -j12 --jobserver-auth=7,8 all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon3' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon3' /usr/bin/make[4] (Makefile.valid.lib): Nothing to be done for `export-headers'. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon3' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon3' +/usr/bin/make[4] (Makefile.taxon3.lib): Nothing to be done for `export-headers'. make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/mla' cd objtools/eutils/epost/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=epost UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/epost' @@ -20896,8 +20931,8 @@ /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/epost TMPL=epost -w -j12 --jobserver-auth=7,8 all make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastxml/BlastOutput_.cpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastxml/blastxml___.cpp:2: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/einfo/DbInfo_.cpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/einfo/einfo___.cpp:2: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ @@ -20910,8 +20945,8 @@ 65 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqcode/Seq_code_set_.cpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqcode/seqcode___.cpp:2: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastxml/BlastOutput_.cpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastxml/blastxml___.cpp:2: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ @@ -20924,8 +20959,8 @@ 65 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastxml2/BlastOutput2_.cpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastxml2/blastxml2___.cpp:2: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/ehistory/EHistoryItem_.cpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/ehistory/ehistory___.cpp:2: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ @@ -20952,8 +20987,8 @@ 65 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/entrez2/E2Reply_.cpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/entrez2/entrez2___.cpp:2: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqcode/Seq_code_set_.cpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqcode/seqcode___.cpp:2: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ @@ -20966,8 +21001,8 @@ 65 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/einfo/DbInfo_.cpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/einfo/einfo___.cpp:2: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastxml2/BlastOutput2_.cpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastxml2/blastxml2___.cpp:2: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ @@ -20980,8 +21015,8 @@ 65 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/egquery/EGQueryResult_.cpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/egquery/egquery___.cpp:2: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/elink/ELinkResult_.cpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/elink/elink___.cpp:2: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ @@ -20994,8 +21029,8 @@ 65 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/elink/ELinkResult_.cpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/elink/elink___.cpp:2: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/entrez2/E2Reply_.cpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/entrez2/entrez2___.cpp:2: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ @@ -21022,8 +21057,8 @@ 65 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/ehistory/EHistoryItem_.cpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/ehistory/ehistory___.cpp:2: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/egquery/EGQueryResult_.cpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/egquery/egquery___.cpp:2: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ @@ -21044,17 +21079,6 @@ /bin/ln -f libegquery.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libegquery.so /bin/ln -f .egquery.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.egquery.dep make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/egquery' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/egquery' -cd objtools/eutils/esearch/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=esearch UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esearch' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esearch' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esearch' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esearch' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esearch' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/esearch TMPL=esearch -w -j12 --jobserver-auth=7,8 all make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/epost' /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/epost/epost__.cpp -o epost__.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/epost/epost___.cpp -o epost___.o @@ -21064,66 +21088,54 @@ /bin/ln -f libepost.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libepost.so /bin/ln -f .epost.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.epost.dep make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/epost' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/egquery' +cd objtools/eutils/esearch/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=esearch UNIX_PROJ="" sources= configurables=configurables.null make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/epost' cd objtools/eutils/espell/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=espell UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esearch' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/espell' make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esearch' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esearch' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/espell' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esearch' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/espell' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esearch' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/espell' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/espell' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/esearch TMPL=esearch -w -j12 --jobserver-auth=7,8 all /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/espell TMPL=espell -w -j12 --jobserver-auth=7,8 all make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqcode' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqcode/seqcode__.cpp -o seqcode__.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqcode/seqcode___.cpp -o seqcode___.o -/bin/rm -f libseqcode.so .libseqcode.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libseqcode.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC seqcode__.o seqcode___.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxser -lxncbi -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libseqcode.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libseqcode.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libseqcode.so -/bin/ln -f .seqcode.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.seqcode.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqcode' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastxml/blastxml__.cpp -o blastxml__.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastxml/blastxml___.cpp -o blastxml___.o -/bin/rm -f libblastxml.so .libblastxml.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libblastxml.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC blastxml__.o blastxml___.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxser -lxncbi -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libblastxml.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libblastxml.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libblastxml.so -/bin/ln -f .blastxml.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.blastxml.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqcode' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon3' cd objtools/eutils/esummary/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=esummary UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/valid' make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esummary' make[4]: warning: -j12 forced in submake: resetting jobserver mode. cd objtools/eutils/uilist/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=uilist UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/uilist' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esummary' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/uilist' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esummary' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esummary' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/uilist' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esummary' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/esummary TMPL=esummary -w -j12 --jobserver-auth=7,8 all -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/uilist' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esummary' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/uilist' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/uilist' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esummary' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/uilist' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/uilist TMPL=uilist -w -j12 --jobserver-auth=7,8 all +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/esummary TMPL=esummary -w -j12 --jobserver-auth=7,8 all +make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon3' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/valid' -cd objects/gbseq/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=gbseq UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/gbseq' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/ehistory' /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/ehistory/ehistory__.cpp -o ehistory__.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/ehistory/ehistory___.cpp -o ehistory___.o @@ -21133,13 +21145,16 @@ /bin/ln -f libehistory.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libehistory.so /bin/ln -f .ehistory.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.ehistory.dep make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/ehistory' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/ehistory' +cd objects/gbseq/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=gbseq UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/gbseq' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/gbseq' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/gbseq' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/gbseq' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/gbseq' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/ehistory' /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/gbseq TMPL=gbseq -w -j12 --jobserver-auth=7,8 all make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/einfo' @@ -21152,9 +21167,29 @@ /bin/ln -f .einfo.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.einfo.dep make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/einfo' make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/einfo' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqcode' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqcode/seqcode__.cpp -o seqcode__.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqcode/seqcode___.cpp -o seqcode___.o +/bin/rm -f libseqcode.so .libseqcode.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libseqcode.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC seqcode__.o seqcode___.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxser -lxncbi -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libseqcode.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libseqcode.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libseqcode.so +/bin/ln -f .seqcode.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.seqcode.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqcode' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqcode' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastxml/blastxml__.cpp -o blastxml__.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastxml/blastxml___.cpp -o blastxml___.o +/bin/rm -f libblastxml.so .libblastxml.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libblastxml.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC blastxml__.o blastxml___.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxser -lxncbi -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libblastxml.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libblastxml.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libblastxml.so +/bin/ln -f .blastxml.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.blastxml.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/espell/ESpellResult_.cpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/espell/espell___.cpp:2: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/esearch/ESearchResult_.cpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/esearch/esearch___.cpp:2: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ @@ -21167,8 +21202,8 @@ 65 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/esearch/ESearchResult_.cpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/esearch/esearch___.cpp:2: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/uilist/IdList_.cpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/uilist/uilist___.cpp:2: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ @@ -21190,19 +21225,9 @@ /bin/ln -f .blastxml2.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.blastxml2.dep make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml2' make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml2' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/espell' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/espell/espell__.cpp -o espell__.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/espell/espell___.cpp -o espell___.o -/bin/rm -f libespell.so .libespell.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libespell.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC espell__.o espell___.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libespell.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libespell.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libespell.so -/bin/ln -f .espell.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.espell.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/espell' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/espell' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/gbseq/GBAltSeqData_.cpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/gbseq/gbseq___.cpp:2: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/espell/ESpellResult_.cpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/espell/espell___.cpp:2: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ @@ -21229,8 +21254,8 @@ 65 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/uilist/IdList_.cpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/uilist/uilist___.cpp:2: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/gbseq/GBAltSeqData_.cpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/gbseq/gbseq___.cpp:2: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ @@ -21242,6 +21267,16 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/uilist' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/uilist/uilist__.cpp -o uilist__.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/uilist/uilist___.cpp -o uilist___.o +/bin/rm -f libuilist.so .libuilist.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libuilist.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC uilist__.o uilist___.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libuilist.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libuilist.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libuilist.so +/bin/ln -f .uilist.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.uilist.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/uilist' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/uilist' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/entrez2' /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/entrez2/entrez2__.cpp -o entrez2__.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/entrez2/entrez2___.cpp -o entrez2___.o @@ -21263,26 +21298,16 @@ make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/entrez2' /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/entrez2 TMPL=entrez2cli -w -j12 --jobserver-auth=7,8 all make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/uilist' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/uilist/uilist__.cpp -o uilist__.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/uilist/uilist___.cpp -o uilist___.o -/bin/rm -f libuilist.so .libuilist.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libuilist.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC uilist__.o uilist___.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libuilist.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libuilist.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libuilist.so -/bin/ln -f .uilist.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.uilist.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/uilist' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/uilist' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/elink' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/elink/elink__.cpp -o elink__.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/elink/elink___.cpp -o elink___.o -/bin/rm -f libelink.so .libelink.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libelink.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC elink__.o elink___.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libelink.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libelink.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libelink.so -/bin/ln -f .elink.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.elink.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/elink' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/elink' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/espell' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/espell/espell__.cpp -o espell__.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/espell/espell___.cpp -o espell___.o +/bin/rm -f libespell.so .libespell.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libespell.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC espell__.o espell___.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libespell.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libespell.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libespell.so +/bin/ln -f .espell.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.espell.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/espell' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/espell' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esearch' /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/esearch/esearch__.cpp -o esearch__.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/esearch/esearch___.cpp -o esearch___.o @@ -21303,6 +21328,16 @@ /bin/ln -f .esummary.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.esummary.dep make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esummary' make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esummary' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/elink' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/elink/elink__.cpp -o elink__.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/elink/elink___.cpp -o elink___.o +/bin/rm -f libelink.so .libelink.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libelink.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC elink__.o elink___.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libelink.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libelink.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libelink.so +/bin/ln -f .elink.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.elink.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/elink' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/elink' cd objtools/eutils/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=eutils UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/api' make[4]: warning: -j12 forced in submake: resetting jobserver mode. @@ -21334,7 +21369,8 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/api/eutils.cpp:34: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/esearch.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/api/esearch.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/eutils.hpp:198:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 198 | auto_ptr m_Stream; | ^~~~~~~~ @@ -21342,12 +21378,12 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/eutils.hpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/esearch.hpp:36: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/epost.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/api/epost.cpp:34: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/einfo.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/api/einfo.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/eutils.hpp:198:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 198 | auto_ptr m_Stream; | ^~~~~~~~ @@ -21355,22 +21391,12 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/epost.hpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/einfo.hpp:36: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/general' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/general/general__.cpp -o general__.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/general/general___.cpp -o general___.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/general/uoconv.cpp -o uoconv.o -/bin/rm -f libgeneral.so .libgeneral.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libgeneral.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC general__.o general___.o uoconv.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxser -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libgeneral.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libgeneral.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libgeneral.so -/bin/ln -f .general.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.general.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/general' -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/elink.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/api/elink.cpp:34: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/efetch.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/api/efetch.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/eutils.hpp:198:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 198 | auto_ptr m_Stream; | ^~~~~~~~ @@ -21378,19 +21404,16 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/elink.hpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/efetch.hpp:36: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/general' -cd objects/biblio/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=biblio UNIX_PROJ="" sources= configurables=configurables.null -cd objects/valid/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=valid UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/biblio' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/valid' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/esearch.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/api/esearch.cpp:34: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/api/efetch.cpp: In member function 'virtual ncbi::CRef ncbi::CEFetch_Request::FetchIdList(int)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/api/efetch.cpp:132:12: warning: catching polymorphic type 'class ncbi::CSerialException' by value [-Wcatch-value=] + 132 | catch (CSerialException) { + | ^~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/ehistory.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/api/ehistory.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/eutils.hpp:198:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 198 | auto_ptr m_Stream; | ^~~~~~~~ @@ -21398,12 +21421,29 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/esearch.hpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/ehistory.hpp:36: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/efetch.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/api/efetch.cpp:34: +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/general' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/general/general__.cpp -o general__.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/general/general___.cpp -o general___.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/general/uoconv.cpp -o uoconv.o +/bin/rm -f libgeneral.so .libgeneral.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libgeneral.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC general__.o general___.o uoconv.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxser -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libgeneral.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libgeneral.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libgeneral.so +/bin/ln -f .general.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.general.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/general' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/general' +cd objects/biblio/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=biblio UNIX_PROJ="" sources= configurables=configurables.null +cd objects/valid/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=valid UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/biblio' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/valid' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/elink.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/api/elink.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/eutils.hpp:198:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 198 | auto_ptr m_Stream; | ^~~~~~~~ @@ -21411,15 +21451,11 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/efetch.hpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/elink.hpp:36: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/biblio' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/biblio' -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/ehistory.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/api/ehistory.cpp:34: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/api/eutils.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/eutils.hpp:198:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 198 | auto_ptr m_Stream; | ^~~~~~~~ @@ -21427,18 +21463,24 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/ehistory.hpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/eutils.hpp:36: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/valid' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/biblio' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/valid' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/biblio' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/biblio' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/valid' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/valid' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/biblio' -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/einfo.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/api/einfo.cpp:34: +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/valid' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/valid' +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/espell.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/api/espell.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/eutils.hpp:198:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 198 | auto_ptr m_Stream; | ^~~~~~~~ @@ -21446,21 +21488,16 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/einfo.hpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/espell.hpp:36: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/api/efetch.cpp: In member function 'virtual ncbi::CRef ncbi::CEFetch_Request::FetchIdList(int)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/api/efetch.cpp:132:12: warning: catching polymorphic type 'class ncbi::CSerialException' by value [-Wcatch-value=] - 132 | catch (CSerialException) { - | ^~~~~~~~~~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/valid' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/valid' /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/biblio TMPL=biblio -w -j12 --jobserver-auth=7,8 all /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/valid TMPL=valid -w -j12 --jobserver-auth=7,8 all -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/esummary.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/api/esummary.cpp:34: +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/epost.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/api/epost.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/eutils.hpp:198:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 198 | auto_ptr m_Stream; | ^~~~~~~~ @@ -21468,14 +21505,12 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/esummary.hpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/epost.hpp:36: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/espell.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/api/espell.cpp:34: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/egquery.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/api/egquery.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/eutils.hpp:198:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 198 | auto_ptr m_Stream; | ^~~~~~~~ @@ -21483,12 +21518,12 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/espell.hpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/egquery.hpp:36: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/egquery.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/api/egquery.cpp:34: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/esummary.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/api/esummary.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/eutils.hpp:198:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 198 | auto_ptr m_Stream; | ^~~~~~~~ @@ -21496,7 +21531,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/egquery.hpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/esummary.hpp:36: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -21510,41 +21545,6 @@ /bin/ln -f .entrez2cli.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.entrez2cli.dep make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/entrez2' make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/entrez2' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/gbseq' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/gbseq/gbseq__.cpp -o gbseq__.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/gbseq/gbseq___.cpp -o gbseq___.o -/bin/rm -f libgbseq.so .libgbseq.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libgbseq.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC gbseq__.o gbseq___.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxser -lxutil -lxncbi -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libgbseq.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libgbseq.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libgbseq.so -/bin/ln -f .gbseq.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.gbseq.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/gbseq' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/gbseq' -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/biblio/Affil_.cpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/biblio/biblio___.cpp:2: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:36: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -d=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/api/elink.cpp -o elink.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/api/esummary.cpp -o esummary.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/api/espell.cpp -o espell.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/api/ehistory.cpp -o ehistory.o -/bin/rm -f libeutils.so .libeutils.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libeutils.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC eutils.o efetch.o einfo.o esearch.o egquery.o epost.o elink.o esummary.o espell.o ehistory.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -leinfo -lesearch -legquery -lepost -lelink -lesummary -lespell -luilist -lehistory -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libeutils.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libeutils.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libeutils.so -/bin/ln -f .eutils.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.eutils.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/api' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/api' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/valid/Comment_set.cpp:49, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/valid/valid__.cpp:3: @@ -21563,6 +21563,20 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/biblio/Affil_.cpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/biblio/biblio___.cpp:2: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:36: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/valid/Comment_set.cpp: In function 'void ncbi::objects::s_InitializeStructuredCommentRules()': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/valid/Comment_set.cpp:118:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 118 | auto_ptr in; @@ -21570,6 +21584,16 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/gbseq' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/gbseq/gbseq__.cpp -o gbseq__.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/gbseq/gbseq___.cpp -o gbseq___.o +/bin/rm -f libgbseq.so .libgbseq.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libgbseq.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC gbseq__.o gbseq___.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxser -lxutil -lxncbi -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libgbseq.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libgbseq.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libgbseq.so +/bin/ln -f .gbseq.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.gbseq.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/gbseq' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/gbseq' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/valid/Comment_rule_.cpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/valid/valid___.cpp:2: @@ -21584,6 +21608,17 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +d=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/api/elink.cpp -o elink.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/api/esummary.cpp -o esummary.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/api/espell.cpp -o espell.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/api/ehistory.cpp -o ehistory.o +/bin/rm -f libeutils.so .libeutils.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libeutils.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC eutils.o efetch.o einfo.o esearch.o egquery.o epost.o elink.o esummary.o espell.o ehistory.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -leinfo -lesearch -legquery -lepost -lelink -lesummary -lespell -luilist -lehistory -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libeutils.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libeutils.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libeutils.so +/bin/ln -f .eutils.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.eutils.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/api' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/api' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/valid' /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/valid/valid__.cpp -o valid__.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/valid/valid___.cpp -o valid___.o @@ -21611,25 +21646,25 @@ make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medlars' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medlars' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medline' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medlars' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medline' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medlars' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medline' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medlars' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medline' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medlars' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medline' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/medlars TMPL=medlars -w -j12 --jobserver-auth=7,8 all +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medlars' /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/medline TMPL=medline -w -j12 --jobserver-auth=7,8 all +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/medlars TMPL=medlars -w -j12 --jobserver-auth=7,8 all make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/medlars/Medlars_entry_.cpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/medlars/medlars___.cpp:2: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/medline/DocRef_.cpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/medline/medline___.cpp:2: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ @@ -21642,8 +21677,8 @@ 65 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/medline/DocRef_.cpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/medline/medline___.cpp:2: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/medlars/Medlars_entry_.cpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/medlars/medlars___.cpp:2: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ @@ -21681,25 +21716,25 @@ make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/pubmed' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/pubmed' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/pub' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/pubmed' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/pub' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/pubmed' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/pub' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/pubmed' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/pub' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/pubmed' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/pubmed' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/pub' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/pubmed TMPL=pubmed -w -j12 --jobserver-auth=7,8 all +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/pubmed' /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/pub TMPL=pub -w -j12 --jobserver-auth=7,8 all +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/pubmed TMPL=pubmed -w -j12 --jobserver-auth=7,8 all make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/pub/Pub_.cpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/pub/pub___.cpp:2: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/pubmed/Pubmed_entry_.cpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/pubmed/pubmed___.cpp:2: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ @@ -21712,8 +21747,8 @@ 65 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/pubmed/Pubmed_entry_.cpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/pubmed/pubmed___.cpp:2: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/pub/Pub_.cpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/pub/pub___.cpp:2: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ @@ -21753,9 +21788,6 @@ make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seq' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/mla' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/mla' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seq' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/mla' make[5]: warning: -j12 forced in submake: resetting jobserver mode. @@ -21763,8 +21795,11 @@ make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/mla' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seq' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/mla TMPL=mla -w -j12 --jobserver-auth=7,8 all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/mla' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/mla' /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq TMPL=seq -w -j12 --jobserver-auth=7,8 all +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/mla TMPL=mla -w -j12 --jobserver-auth=7,8 all make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seq' @@ -21779,9 +21814,8 @@ /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include seqalign___.cpp -o seqalign___.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include seqblock___.cpp -o seqblock___.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducibIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqalign/Dense_diag_.cpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqalign/seqalign___.cpp:2, - from seqalign___.cpp:1: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/mla/Error_val_.cpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/mla/mla___.cpp:2: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ @@ -21794,27 +21828,9 @@ 65 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqloc/Seq_id.cpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqloc/seqloc__.cpp:10, - from seqloc__.cpp:1: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Giimport_id_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Giimport_id.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqloc/Giimport_id.cpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqloc/seqloc__.cpp:2: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/mla/Error_val_.cpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/mla/mla___.cpp:2: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqfeat/BinomialOrgName_.cpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqfeat/seqfeat___.cpp:2, + from seqfeat___.cpp:1: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ @@ -21841,9 +21857,9 @@ 65 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqblock/EMBL_block_.cpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqblock/seqblock___.cpp:2, - from seqblock___.cpp:1: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqalign/Dense_diag_.cpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqalign/seqalign___.cpp:2, + from seqalign___.cpp:1: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ @@ -21856,9 +21872,9 @@ 65 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqloc/Giimport_id_.cpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqloc/seqloc___.cpp:2, - from seqloc___.cpp:1: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqloc/Seq_id.cpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqloc/seqloc__.cpp:10, + from seqloc__.cpp:1: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ @@ -21866,14 +21882,18 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Giimport_id_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Giimport_id.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqloc/Giimport_id.cpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqloc/seqloc__.cpp:2: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqfeat/BinomialOrgName_.cpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqfeat/seqfeat___.cpp:2, - from seqfeat___.cpp:1: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqblock/EMBL_block_.cpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqblock/seqblock___.cpp:2, + from seqblock___.cpp:1: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ @@ -21904,14 +21924,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqloc/seqloc__.cpp:13: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqloc/Seq_loc.cpp: In function 'void ncbi::objects::x_MergeAndSort(CSeq_loc&, const CSeq_loc&, CSeq_loc::TOpFlags, ISynonymMapper&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqloc/Seq_loc.cpp:4648:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 4648 | auto_ptr pid_map_minus(use_strand ? - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqfeat/seqfeat__.cpp:19: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqfeat/Genetic_code_table.cpp: In static member function 'static void ncbi::objects::CGen_code_table::LoadTransTable(const std::string&, ncbi::ESerialDataFormat)': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqfeat/Genetic_code_table.cpp:379:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] @@ -21927,6 +21939,14 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqloc/seqloc__.cpp:13: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqloc/Seq_loc.cpp: In function 'void ncbi::objects::x_MergeAndSort(CSeq_loc&, const CSeq_loc&, CSeq_loc::TOpFlags, ISynonymMapper&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqloc/Seq_loc.cpp:4648:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 4648 | auto_ptr pid_map_minus(use_strand ? + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqloc/Seq_loc.cpp: In function 'void ncbi::objects::x_SubAndSort(CSeq_loc&, const CSeq_loc&, const TFuzzMap&, const TFuzzMap&, const TFuzzMap&, const TFuzzMap&, TIdToRangeColl&, TIdToRangeColl&, ISynonymMapper&, ILengthGetter&, CSeq_loc::TOpFlags)': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqloc/Seq_loc.cpp:4933:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 4933 | auto_ptr p_id_map_minus(use_strand ? @@ -21974,6 +21994,29 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqloc/Giimport_id_.cpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqloc/seqloc___.cpp:2, + from seqloc___.cpp:1: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:36: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqfeat/seqfeat__.cpp:30: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqfeat/PCRPrimerSeq.cpp: In static member function 'static bool ncbi::objects::CPCRPrimerSeq::Fixi(std::string&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqfeat/PCRPrimerSeq.cpp:249:25: warning: 'static ncbi::SIZE_TYPE ncbi::NStr::Find(ncbi::CTempString, ncbi::CTempString, ncbi::SIZE_TYPE, ncbi::SIZE_TYPE, EOccurrence, ECase)' is deprecated [-Wdeprecated-declarations] + 249 | pos = NStr::Find(seq, "i", pos, NPOS, NStr::eFirst, NStr::eCase); + | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:5344:11: note: declared here + 5344 | SIZE_TYPE NStr::Find(const CTempString str, const CTempString pattern, + | ^~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqalign/seqalign__.cpp:9, from seqalign__.cpp:1: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqalign/Seq_align.cpp: In member function 'void ncbi::objects::CSeq_align::RemapToLoc(ncbi::objects::CSeq_align_Base::TDim, const ncbi::objects::CSeq_loc&, bool)': @@ -21997,34 +22040,24 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqalign/Seq_align.cpp:1365:6: note: declared here 1365 | void CSeq_align::RemapToLoc(TDim row, | ^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqfeat/seqfeat__.cpp:30: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqfeat/PCRPrimerSeq.cpp: In static member function 'static bool ncbi::objects::CPCRPrimerSeq::Fixi(std::string&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqfeat/PCRPrimerSeq.cpp:249:25: warning: 'static ncbi::SIZE_TYPE ncbi::NStr::Find(ncbi::CTempString, ncbi::CTempString, ncbi::SIZE_TYPE, ncbi::SIZE_TYPE, EOccurrence, ECase)' is deprecated [-Wdeprecated-declarations] - 249 | pos = NStr::Find(seq, "i", pos, NPOS, NStr::eFirst, NStr::eCase); - | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:5344:11: note: declared here - 5344 | SIZE_TYPE NStr::Find(const CTempString str, const CTempString pattern, - | ^~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqfeat/seqfeat__.cpp:42: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqfeat/RNA_ref.cpp: In function 'ncbi::CTempString ncbi::objects::s_AaName(int)': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqfeat/RNA_ref.cpp:124:24: warning: comparison of integer expressions of different signedness: 'int' and 'std::size_t' {aka 'long unsigned int'} [-Wsign-compare] 124 | if (idx > 0 && idx < ArraySize(sc_TrnaList)) { | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqres/Byte_graph_.cpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqres/seqres___.cpp:2, - from seqres___.cpp:1: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:36: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/mla' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/mla/mla__.cpp -o mla__.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/mla/mla___.cpp -o mla___.o +/bin/rm -f libmla.so .libmla.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libmla.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC mla__.o mla___.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lmedlars -lpub -lpubmed -lxser -lxutil -lxncbi -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libmla.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libmla.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libmla.so +/bin/ln -f .mla.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.mla.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/mla' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/mla' +cd objects/mla/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=mlacli UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/mla' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqfeat/seqfeat__.cpp:44: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqfeat/SeqFeatData.cpp: In static member function 'static const ncbi::objects::CFeatList* ncbi::objects::CSeqFeatData::GetFeatList()': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqfeat/SeqFeatData.cpp:3752:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] @@ -22033,6 +22066,8 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/mla' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqfeat/SeqFeatData.cpp: In static member function 'static const ncbi::objects::CBondList* ncbi::objects::CSeqFeatData::GetBondList()': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqfeat/SeqFeatData.cpp:3766:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 3766 | static auto_ptr theBondList; @@ -22040,6 +22075,7 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/mla' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqfeat/SeqFeatData.cpp: In static member function 'static const ncbi::objects::CSiteList* ncbi::objects::CSeqFeatData::GetSiteList()': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqfeat/SeqFeatData.cpp:3781:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 3781 | static auto_ptr theSiteList; @@ -22047,6 +22083,11 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/mla' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/mla' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/mla TMPL=mlacli -w -j12 --jobserver-auth=7,8 all +make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqfeat/seqfeat__.cpp:48: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqfeat/SubSource.cpp: In static member function 'static void ncbi::objects::CSubSource::IsCorrectDateFormat(const std::string&, bool&, bool&)': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqfeat/SubSource.cpp:464:14: warning: catching polymorphic type 'class ncbi::CException' by value [-Wcatch-value=] @@ -22059,19 +22100,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqfeat/SubSource.cpp:516:14: warning: catching polymorphic type 'class ncbi::CException' by value [-Wcatch-value=] 516 | } catch (CException) { | ^~~~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/mla' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/mla/mla__.cpp -o mla__.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/mla/mla___.cpp -o mla___.o -/bin/rm -f libmla.so .libmla.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libmla.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC mla__.o mla___.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lmedlars -lpub -lpubmed -lxser -lxutil -lxncbi -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libmla.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libmla.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libmla.so -/bin/ln -f .mla.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.mla.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/mla' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/mla' -cd objects/mla/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=mlacli UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/mla' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqfeat/SubSource.cpp: In function 'ncbi::objects::CCountries::EStateCleanup ncbi::objects::s_DoUSAStateCleanup(std::string&)': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqfeat/SubSource.cpp:4334:24: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'long unsigned int'} [-Wsign-compare] 4334 | for ( int j = 0; j < components.size(); j++ ) { @@ -22092,6 +22120,21 @@ 4349 | string* last = 0; | ^~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqres/Byte_graph_.cpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqres/seqres___.cpp:2, + from seqres___.cpp:1: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:36: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqtable/BVector_data_.cpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqtable/seqtable___.cpp:2, from seqtable___.cpp:1: @@ -22106,21 +22149,7 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/mla' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/mla' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/mla' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/mla' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/mla TMPL=mlacli -w -j12 --jobserver-auth=7,8 all -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -le-path/ncbi-blast+-2.12.0+ds/c++/include seqfeat___.cpp -o seqfeat___.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include seqloc___.cpp -o seqloc___.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include seqres___.cpp -o seqres___.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include seqtable___.cpp -o seqtable___.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/seqport_util.cpp -o seqport_util.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/seq_id_tree.cpp -o seq_id_tree.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-cIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/mla/mla_client_.cpp:39: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; @@ -22133,7 +22162,13 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/seqport_util.cpp: In member function 'ncbi::CRef ncbi::objects::CSeqportUtil_implementation::Init()': +le-path/ncbi-blast+-2.12.0+ds/c++/include seqfeat___.cpp -o seqfeat___.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include seqloc___.cpp -o seqloc___.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include seqres___.cpp -o seqres___.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include seqtable___.cpp -o seqtable___.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/seqport_util.cpp -o seqport_util.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/seq_id_tree.cpp -o seq_id_tree.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-c/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/seqport_util.cpp: In member function 'ncbi::CRef ncbi::objects::CSeqportUtil_implementation::Init()': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/seqport_util.cpp:1307:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 1307 | auto_ptr | ^~~~~~~~ @@ -22247,61 +22282,61 @@ cd objects/genomecoll/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=genome_collection UNIX_PROJ="" sources= configurables=configurables.null cd objects/variation/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=variation UNIX_PROJ="" sources= configurables=configurables.null cd objects/taxon1/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=taxon1 UNIX_PROJ="" sources= configurables=configurables.null +cd objects/taxon3/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=taxon3 UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqset' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -cd objects/taxon3/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=taxon3 UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastdb' make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/genomecoll' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastdb' make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/variation' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon3' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/variation' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/genomecoll' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon3' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastdb' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqset' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/genomecoll' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon3' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/genomecoll' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastdb' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastdb' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/variation' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqset' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon3' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/variation' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastdb' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/genomecoll' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastdb' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon3' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/variation' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon3' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/genomecoll' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqset' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastdb' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/variation' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastdb' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqset' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/variation' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/genomecoll' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon3' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/variation' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon1 TMPL=taxon1 -w -j12 --jobserver-auth=7,8 all -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon3 TMPL=taxon3 -w -j12 --jobserver-auth=7,8 all +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqset' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon3' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon3' /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/genomecoll TMPL=genome_collection -w -j12 --jobserver-auth=7,8 all /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastdb TMPL=blastdb -w -j12 --jobserver-auth=7,8 all -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqset TMPL=seqset -w -j12 --jobserver-auth=7,8 all /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/variation TMPL=variation -w -j12 --jobserver-auth=7,8 all +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon1 TMPL=taxon1 -w -j12 --jobserver-auth=7,8 all +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqset TMPL=seqset -w -j12 --jobserver-auth=7,8 all +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon3 TMPL=taxon3 -w -j12 --jobserver-auth=7,8 all make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: warning: -j12 forced in submake: resetting jobserver mode. @@ -22309,8 +22344,8 @@ make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon3/SequenceOfInt_.cpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon3/taxon3___.cpp:2: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/variation/VariantPlacement_.cpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/variation/variation___.cpp:2: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ @@ -22323,8 +22358,8 @@ 65 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastdb/Blast_db_mask_info_.cpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastdb/blastdb___.cpp:2: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqset/Bioseq_set_.cpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqset/seqset___.cpp:2: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ @@ -22337,8 +22372,8 @@ 65 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/genomecoll/GC_Assemblies_.cpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/genomecoll/genome_collection___.cpp:2: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon3/SequenceOfInt_.cpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon3/taxon3___.cpp:2: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ @@ -22351,8 +22386,8 @@ 65 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/variation/VariantPlacement_.cpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/variation/variation___.cpp:2: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/genomecoll/GC_Assemblies_.cpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/genomecoll/genome_collection___.cpp:2: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ @@ -22365,8 +22400,8 @@ 65 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqset/Bioseq_set_.cpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqset/seqset___.cpp:2: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastdb/Blast_db_mask_info_.cpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastdb/blastdb___.cpp:2: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ @@ -22392,29 +22427,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon3/taxon3.cpp: In member function 'virtual ncbi::CRef ncbi::objects::CTaxon3::SendRequest(const ncbi::objects::CTaxon3_request&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon3/taxon3.cpp:116:25: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 116 | auto_ptr pOut; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon3/taxon3.cpp:34: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon3/taxon3.cpp:117:25: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 117 | auto_ptr pIn; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon3/taxon3.cpp:118:25: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 118 | auto_ptr - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqset/gb_release_file.cpp:68:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 68 | auto_ptr m_In; | ^~~~~~~~ @@ -22469,6 +22481,33 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon1/cache.cpp: In member function 'void ncbi::objects::CDomainStorage::AddField(int, int, const std::string&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon1/cache.cpp:787:24: warning: comparison of integer expressions of different signedness: 'std::vector::size_type' {aka 'long unsigned int'} and 'int' [-Wsign-compare] + 787 | if( m_types.size() <= field_no ) { + | ~~~~~~~~~~~~~~~^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon3/taxon3.cpp: In member function 'virtual ncbi::CRef ncbi::objects::CTaxon3::SendRequest(const ncbi::objects::CTaxon3_request&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon3/taxon3.cpp:116:25: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 116 | auto_ptr pOut; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon3/taxon3.cpp:34: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon3/taxon3.cpp:117:25: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 117 | auto_ptr pIn; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon3/taxon3.cpp:118:25: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 118 | auto_ptr + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastdb' /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastdb/blastdb__.cpp -o blastdb__.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastdb/blastdb___.cpp -o blastdb___.o @@ -22479,10 +22518,6 @@ /bin/ln -f .blastdb.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.blastdb.dep make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastdb' make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastdb' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon1/cache.cpp: In member function 'void ncbi::objects::CDomainStorage::AddField(int, int, const std::string&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon1/cache.cpp:787:24: warning: comparison of integer expressions of different signedness: 'std::vector::size_type' {aka 'long unsigned int'} and 'int' [-Wsign-compare] - 787 | if( m_types.size() <= field_no ) { - | ~~~~~~~~~~~~~~~^~~~~~~~~~~ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqset' /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqset/seqset__.cpp -o seqset__.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqset/seqset___.cpp -o seqset___.o @@ -22503,46 +22538,46 @@ make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqedit' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/submit' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqsplit' make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/submit' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id1' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/scoremat' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqedit' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/scoremat' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqedit' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqsplit' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/submit' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqedit' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/scoremat' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id1' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/scoremat' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqsplit' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/submit' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/scoremat' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqedit' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id1' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/scoremat' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqedit' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqsplit' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqedit' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/submit' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqsplit' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id1' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqedit' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqsplit' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/scoremat' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/submit' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id1' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/scoremat TMPL=scoremat -w -j12 --jobserver-auth=7,8 all +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/scoremat' /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqedit TMPL=seqedit -w -j12 --jobserver-auth=7,8 all -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqsplit TMPL=seqsplit -w -j12 --jobserver-auth=7,8 all /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/submit TMPL=submit -w -j12 --jobserver-auth=7,8 all +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/scoremat TMPL=scoremat -w -j12 --jobserver-auth=7,8 all +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqsplit TMPL=seqsplit -w -j12 --jobserver-auth=7,8 all /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/id1 TMPL=id1 -w -j12 --jobserver-auth=7,8 all make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: warning: -j12 forced in submake: resetting jobserver mode. @@ -22560,19 +22595,16 @@ /bin/ln -f .taxon3.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.taxon3.dep make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon3' make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon3' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/variation' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/variation/variation__.cpp -o variation__.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/variation/variation___.cpp -o variation___.o -/bin/rm -f libvariation.so .libvariation.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libvariation.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC variation__.o variation___.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lseq -lxser -lxutil -lxncbi -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libvariation.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libvariation.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libvariation.so -/bin/ln -f .variation.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.variation.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/variation' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/variation' -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqedit/SeqEdit_Cmd_.cpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqedit/seqedit___.cpp:2: +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon1/taxon1__.cpp -o taxon1__.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon1/taxon1___.cpp -o taxon1___.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon1/taxon1.cpp -o taxon1.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon1/cache.cpp -o cache.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon1/utils.cpp -o utils.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon1/ctreecont.cpp -o ctreecont.o +/bin/rm -f libtaxon1.so .libtaxon1.so.stIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/submit/Contact_info_.cpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/submit/submit___.cpp:2: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ @@ -22585,8 +22617,8 @@ 65 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqsplit/ID2S_Bioseq_Ids_.cpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqsplit/seqsplit___.cpp:2: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/id1/Entry_complexities_.cpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/id1/id1___.cpp:2: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ @@ -22613,8 +22645,8 @@ 65 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/submit/Contact_info_.cpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/submit/submit___.cpp:2: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqsplit/ID2S_Bioseq_Ids_.cpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqsplit/seqsplit___.cpp:2: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ @@ -22626,9 +22658,26 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/variation' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/variation/variation__.cpp -o variation__.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/variation/variation___.cpp -o variation___.o +/bin/rm -f libvariation.so .libvariation.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libvariation.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC variation__.o variation___.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lseq -lxser -lxutil -lxncbi -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libvariation.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libvariation.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libvariation.so +/bin/ln -f .variation.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.variation.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/variation' +amp +/usr/bin/g++ -std=gnu++14 -shared -o libtaxon1.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC taxon1__.o taxon1___.o taxon1.o cache.o utils.o ctreecont.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxconnect -lseq -lxser -lxutil -lxncbi -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libtaxon1.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libtaxon1.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libtaxon1.so +/bin/ln -f .taxon1.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.taxon1.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/variation' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/id1/Entry_complexities_.cpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/id1/id1___.cpp:2: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqedit/SeqEdit_Cmd_.cpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqedit/seqedit___.cpp:2: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ @@ -22650,20 +22699,16 @@ /bin/ln -f .genome_collection.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.genome_collection.dep make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/genomecoll' make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/genomecoll' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon1/taxon1__.cpp -o taxon1__.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon1/taxon1___.cpp -o taxon1___.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon1/taxon1.cpp -o taxon1.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon1/cache.cpp -o cache.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon1/utils.cpp -o utils.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon1/ctreecont.cpp -o ctreecont.o -/bin/rm -f libtaxon1.so .libtaxon1.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libtaxon1.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC taxon1__.o taxon1___.o taxon1.o cache.o utils.o ctreecont.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxconnect -lseq -lxser -lxutil -lxncbi -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libtaxon1.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libtaxon1.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libtaxon1.so -/bin/ln -f .taxon1.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.taxon1.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id1' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/id1/id1__.cpp -o id1__.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/id1/id1___.cpp -o id1___.o +/bin/rm -f libid1.so .libid1.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libid1.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC id1__.o id1___.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lseqset -lseq -lxser -lxncbi -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libid1.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libid1.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libid1.so +/bin/ln -f .id1.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.id1.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id1' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id1' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/submit' /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/submit/submit__.cpp -o submit__.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/submit/submit___.cpp -o submit___.o @@ -22691,17 +22736,7 @@ /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/reader_message_handler.cpp -o reader_message_handler.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/read_util.cpp -o read_util.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/format_guess_ex.cpp -o format_guess_ex.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blmake[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id1' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/id1/id1__.cpp -o id1__.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/id1/id1___.cpp -o id1___.o -/bin/rm -f libid1.so .libid1.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libid1.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC id1__.o id1___.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lseqset -lseq -lxser -lxncbi -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libid1.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libid1.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libid1.so -/bin/ln -f .id1.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.id1.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id1' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id1' -ast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/seqid_validate.cpp -o seqid_validate.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/seqid_validate.cpp -o seqid_validate.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/acc_pattern.cpp -o acc_pattern.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/agp_read.cpp -o agp_read.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/agp_seq_entry.cpp -o agp_seq_entry.o @@ -22817,10 +22852,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/agp_util.cpp: In member function 'int ncbi::CAgpErrEx::GetCount(ncbi::CAgpErr::EErrCode) const': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/agp_util.cpp:1706:14: warning: comparison between 'enum ncbi::CAgpErr::EErrCode' and 'enum ncbi::CAgpErrEx::' [-Wenum-compare] - 1706 | if (code < CODE_Last) { - | ~~~~~^~~~~~~~~~~ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/scoremat' /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/scoremat/scoremat__.cpp -o scoremat__.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/scoremat/scoremat___.cpp -o scoremat___.o @@ -22830,6 +22861,55 @@ /bin/ln -f libscoremat.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libscoremat.so /bin/ln -f .scoremat.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.scoremat.dep make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/scoremat' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/scoremat' +cd objects/blast/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=blast UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blast TMPL=blast -w -j12 --jobserver-auth=7,8 all +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/agp_validate_reader.cpp: In member function 'virtual void ncbi::CAgpValidateReader::OnGapOrComponent()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/agp_validate_reader.cpp:160:20: warning: comparison of integer expressions of different signedness: 'int' and 'ncbi::TSeqPos' {aka 'unsigned int'} [-Wsign-compare] + 160 | if(m_max_obj_beg < m_this_row->object_beg) m_max_obj_beg = m_this_row->object_beg; + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/agp_validate_reader.cpp:229:23: warning: comparison of integer expressions of different signedness: 'int' and 'ncbi::TSeqPos' {aka 'unsigned int'} [-Wsign-compare] + 229 | if(m_max_comp_beg < m_this_row->component_beg) m_max_comp_beg = m_this_row->component_beg; + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/agp_validate_reader.cpp:405:25: warning: comparison of integer expressions of different signedness: 'int' and 'ncbi::TSeqPos' {aka 'unsigned int'} [-Wsign-compare] + 405 | if(it->second != m_this_row->component_end) m_has_partial_comp=true; + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/agp_validate_reader.cpp:407:27: warning: comparison of integer expressions of different signedness: 'int' and 'ncbi::TSeqPos' {aka 'unsigned int'} [-Wsign-compare] + 407 | if(it->second > m_this_row->component_end || m_this_row->component_beg>1) { + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/agp_validate_reader.cpp: In member function 'virtual void ncbi::CAgpValidateReader::OnObjectChange()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/agp_validate_reader.cpp:541:28: warning: comparison of integer expressions of different signedness: 'int' and 'ncbi::TSeqPos' {aka 'unsigned int'} [-Wsign-compare] + 541 | if(m_expected_obj_len!=m_prev_row->object_end) { + | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/agp_validate_reader.cpp:585:28: warning: catching polymorphic type 'class ncbi::CException' by value [-Wcatch-value=] + 585 | catch(CException e){ + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/agp_util.cpp: In member function 'int ncbi::CAgpErrEx::GetCount(ncbi::CAgpErr::EErrCode) const': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/agp_util.cpp:1706:14: warning: comparison between 'enum ncbi::CAgpErr::EErrCode' and 'enum ncbi::CAgpErrEx::' [-Wenum-compare] + 1706 | if (code < CODE_Last) { + | ~~~~~^~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/seqid_validate.cpp:34: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/seqid_validate.cpp:33: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/agp_read.cpp: In function 'ncbi::CRef ncbi::AgpRead(CNcbiIstream&, EAgpRead_IdRule, bool, std::vector >*)': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/agp_read.cpp:58:12: warning: 'void ncbi::AgpRead(CNcbiIstream&, std::vector >&, EAgpRead_IdRule, bool, std::vector >*)' is deprecated [-Wdeprecated-declarations] 58 | AgpRead(is, entries, component_id_rule, set_gap_data, component_types); @@ -22845,8 +22925,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/agp_read.hpp:52:6: note: declared here 52 | void AgpRead(CNcbiIstream& is, | ^~~~~~~ -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/scoremat' -cd objects/blast/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=blast UNIX_PROJ="" sources= configurables=configurables.null In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/format_guess_ex.cpp:51: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/format_guess_ex.hpp:140:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 140 | auto_ptr m_Guesser; @@ -22859,59 +22937,20 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/seqid_validate.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blast/Blas_get_searc_resul_reply_.cpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blast/blast___.cpp:2: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/seqid_validate.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:36: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/agp_validate_reader.cpp: In member function 'virtual void ncbi::CAgpValidateReader::OnGapOrComponent()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/agp_validate_reader.cpp:160:20: warning: comparison of integer expressions of different signedness: 'int' and 'ncbi::TSeqPos' {aka 'unsigned int'} [-Wsign-compare] - 160 | if(m_max_obj_beg < m_this_row->object_beg) m_max_obj_beg = m_this_row->object_beg; - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/agp_validate_reader.cpp:229:23: warning: comparison of integer expressions of different signedness: 'int' and 'ncbi::TSeqPos' {aka 'unsigned int'} [-Wsign-compare] - 229 | if(m_max_comp_beg < m_this_row->component_beg) m_max_comp_beg = m_this_row->component_beg; - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/agp_validate_reader.cpp:405:25: warning: comparison of integer expressions of different signedness: 'int' and 'ncbi::TSeqPos' {aka 'unsigned int'} [-Wsign-compare] - 405 | if(it->second != m_this_row->component_end) m_has_partial_comp=true; - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/agp_validate_reader.cpp:407:27: warning: comparison of integer expressions of different signedness: 'int' and 'ncbi::TSeqPos' {aka 'unsigned int'} [-Wsign-compare] - 407 | if(it->second > m_this_row->component_end || m_this_row->component_beg>1) { - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/agp_validate_reader.cpp: In member function 'virtual void ncbi::CAgpValidateReader::OnObjectChange()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/agp_validate_reader.cpp:541:28: warning: comparison of integer expressions of different signedness: 'int' and 'ncbi::TSeqPos' {aka 'unsigned int'} [-Wsign-compare] - 541 | if(m_expected_obj_len!=m_prev_row->object_end) { - | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/agp_validate_reader.cpp:585:28: warning: catching polymorphic type 'class ncbi::CException' by value [-Wcatch-value=] - 585 | catch(CException e){ - | ^ -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blast TMPL=blast -w -j12 --jobserver-auth=7,8 all -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqedit' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqedit/seqedit__.cpp -o seqedit__.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqedit/seqedit___.cpp -o seqedit___.o -/bin/rm -f libseqedit.so .libseqedit.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libseqedit.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC seqedit__.o seqedit___.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lseqset -lseq -lgeneral -lxser -lxncbi -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libseqedit.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libseqedit.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libseqedit.so -/bin/ln -f .seqedit.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.seqedit.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqedit' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqedit' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, @@ -22925,14 +22964,14 @@ | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/alnread.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_errors.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/alnread.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_errors.cpp:33: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -22949,99 +22988,44 @@ /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/alnread.cpp -o alnread.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_errors.cpp -o aln_errors.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_error_reporter.cpp -o aln_error_reporter.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/fasta.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:36: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/aln_error_reporter.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_error_reporter.cpp:32: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/aln_error_reporter.hpp:34: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_errors.cpp:34: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_errors.cpp:33: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blast/Blas_get_searc_resul_reply_.cpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blast/blast___.cpp:2: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:36: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_Fmake[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqedit' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqedit/seqedit__.cpp -o seqedit__.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqedit/seqedit___.cpp -o seqedit___.o +/bin/rm -f libseqedit.so .libseqedit.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libseqedit.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC seqedit__.o seqedit___.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lseqset -lseq -lgeneral -lxser -lxncbi -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libseqedit.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libseqedit.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libseqedit.so +/bin/ln -f .seqedit.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.seqedit.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqedit' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqedit' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_util.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/alnread.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_util.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/alnread.cpp:33: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_util.cpp: In function 'void ncbi::objects::AlnUtil::CheckId(const std::string&, const std::vector&, int, int, bool)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_util.cpp:56:28: warning: comparison of integer expressions of different signedness: 'std::vector::size_type' {aka 'long unsigned int'} and 'int' [-Wsign-compare] - 56 | if ((orderedIds.size() > idCount) && - | ~~~~~~~~~~~~~~~~~~^~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_formatguess.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/fasta.cpp:37: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_formatguess.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:36: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -ILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_formatguess.cpp -o aln_formatguess.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_util.cpp -o aln_util.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_reader.cpp -o aln_reader.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner.cpp -o aln_scanner.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_fastagap.cpp -o aln_scanner_fastagap.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_clustal.cpp -o aln_scanner_clustal.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstackmake[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqsplit' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqsplit' /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqsplit/seqsplit__.cpp -o seqsplit__.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqsplit/seqsplit___.cpp -o seqsplit___.o /bin/rm -f libseqsplit.so .libseqsplit.so.stamp @@ -23060,11 +23044,26 @@ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr' +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/aln_error_reporter.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_error_reporter.cpp:32: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/aln_error_reporter.hpp:34: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id2' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id2' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id2' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id2' make[5]: warning: -j12 forced in submake: resetting jobserver mode. @@ -23080,37 +23079,13 @@ /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/table_field.cpp -o table_field.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_map_switch.cpp -o seq_map_switch.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/snp_annot_info.cpp -o snp_annot_info.o -/usr/bin/g++In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/aln_reader.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_reader.cpp:33: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/aln_reader.hpp:35: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_multalign.cpp:34: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_multalign.cpp:33: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, +/usr/bin/g++ILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_formatguess.cpp -o aln_formatguess.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_util.cpp -o aln_util.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_reader.cpp -o aln_reader.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner.cpp -o aln_scanner.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_fastagap.cpp -o aln_scanner_fastagap.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_clustal.cpp -o aln_scanner_clustal.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstackIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] @@ -23123,30 +23098,23 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_multalign.cpp: In member function 'virtual void ncbi::objects::CAlnScannerMultAlign::xImportAlignmentData(ncbi::objects::CSequenceInfo&, ncbi::objects::CLineInput&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_multalign.cpp:125:37: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'long unsigned int'} [-Wsign-compare] - 125 | if (lineInBlock != expectedNumSequences) { - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_multalign.cpp:135:48: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'long unsigned int'} [-Wsign-compare] - 135 | if (!inFirstBlock && lineInBlock == expectedNumSequences) { - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_fastagap.cpp:53: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/aln_reader.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_reader.cpp:33: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_fastagap.cpp:52: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/aln_reader.hpp:35: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_fastagap.cpp: In member function 'virtual void ncbi::objects::CAlnScannerFastaGap::xImportAlignmentData(ncbi::objects::CSequenceInfo&, ncbi::objects::CLineInput&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_fastagap.cpp:121:41: warning: comparison of integer expressions of different signedness: 'long unsigned int' and 'int' [-Wsign-compare] - 121 | if (currentDataSize != expectedDataSize) { - | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner.cpp: In member function 'virtual void ncbi::objects::CAlnScanner::xVerifyAlignmentData(const ncbi::objects::CSequenceInfo&)': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner.cpp:92:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'long unsigned int'} [-Wsign-compare] 92 | for (auto i=0; i < mSequences.size(); ++i) { @@ -23167,65 +23135,32 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_reader.cpp:507:15: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] 507 | if (i < m_DeflineInfo.size() && !m_DeflineInfo[i].mData.empty()) { | ~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_formatguess.cpp: In member function 'bool ncbi::objects::CAlnFormatGuesser::xSampleIsClustal(TSample&, ncbi::objects::CPeekAheadStream&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_formatguess.cpp:137:23: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'long unsigned int'} [-Wsign-compare] - 137 | if (lineCount < sample.size()) { - | ~~~~~~~~~~^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_formatguess.cpp: In member function 'bool ncbi::objects::CAlnFormatGuesser::xSampleIsFastaGap(const TSample&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_formatguess.cpp:176:15: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'long unsigned int'} [-Wsign-compare] - 176 | for ( ; i < sample.size(); ++i) { - | ~~^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_formatguess.cpp:181:11: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'long unsigned int'} [-Wsign-compare] - 181 | if (i < sample.size()) { - | ~~^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_formatguess.cpp: In member function 'bool ncbi::objects::CAlnFormatGuesser::xSampleIsSequin(const TSample&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_formatguess.cpp:234:29: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'long unsigned int'} [-Wsign-compare] - 234 | for (int index=0; index < tokens.size(); ++index) { - | ~~~~~~^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_formatguess.cpp: In member function 'bool ncbi::objects::CAlnFormatGuesser::xSampleIsMultAlign(const TSample&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_formatguess.cpp:258:23: warning: comparison of integer expressions of different signedness: 'std::vector >::size_type' {aka 'long unsigned int'} and 'int' [-Wsign-compare] - 258 | if (sample.size() < lineIndex + 4) { - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_formatguess.cpp:295:22: warning: comparison of integer expressions of different signedness: 'long unsigned int' and 'int' [-Wsign-compare] - 295 | return (dataSize == (endOffset - startOffset + 1)); - | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_clustal.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_formatguess.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_clustal.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_formatguess.cpp:33: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ --clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_nexus.cpp -o aln_scanner_nexus.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_phylip.cpp -o aln_scanner_phylip.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_sequin.cpp -o aln_scanner_sequin.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_multalign.cpp -o aln_scanner_multalign.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/fasta_aln_builder.cpp -o fasta_aln_builder.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/fasta_reader_utils.cpp -o fasta_reader_utils.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthreadIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/annot_selector.cpp:34: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_util.cpp:34: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_name.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_selector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/annot_selector.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_util.cpp:33: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_clustal.cpp: In member function 'void ncbi::objects::CAlnScannerClustal::sProcessClustalDataLine(const std::vector >&, int, int, int, bool, int&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_clustal.cpp:296:27: warning: comparison of integer expressions of different signedness: 'long unsigned int' and 'int' [-Wsign-compare] - 296 | if (currentLineLength != blockLineLength) { - | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_phylip.cpp:34: @@ -23239,6 +23174,26 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/snp_annot_info.cpp:34: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:103:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 103 | auto_ptr m_Indices; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/snp_annot_info.cpp:32: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:154:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 154 | auto_ptr m_Indices; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_phylip.cpp: In member function 'virtual void ncbi::objects::CAlnScannerPhylip::xImportAlignmentData(ncbi::objects::CSequenceInfo&, ncbi::objects::CLineInput&)': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_phylip.cpp:129:27: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long unsigned int'} and 'int' [-Wsign-compare] 129 | if (dataLineCount < mSequenceCount) { // in first block @@ -23247,9 +23202,13 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_phylip.cpp:210:24: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] 210 | if (mSequenceCount != mSeqIds.size()) { | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/snp_annot_info.cpp:34: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:103:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 103 | auto_ptr m_Indices; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_util.cpp: In function 'void ncbi::objects::AlnUtil::CheckId(const std::string&, const std::vector&, int, int, bool)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_util.cpp:56:28: warning: comparison of integer expressions of different signedness: 'std::vector::size_type' {aka 'long unsigned int'} and 'int' [-Wsign-compare] + 56 | if ((orderedIds.size() > idCount) && + | ~~~~~~~~~~~~~~~~~~^~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_annot_info.cpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, @@ -23257,7 +23216,52 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/snp_annot_info.cpp:32: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/seq_annot_info.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_annot_info.cpp:37: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_annot_info.cpp:45: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/graph_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/graph_ci.cpp:34: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:36: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_annot_info.cpp:46: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:103:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 103 | auto_ptr m_Indices; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -23269,14 +23273,28 @@ | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_nexus.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_multalign.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_nexus.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_multalign.cpp:33: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_multalign.cpp: In member function 'virtual void ncbi::objects::CAlnScannerMultAlign::xImportAlignmentData(ncbi::objects::CSequenceInfo&, ncbi::objects::CLineInput&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_multalign.cpp:125:37: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'long unsigned int'} [-Wsign-compare] + 125 | if (lineInBlock != expectedNumSequences) { + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_multalign.cpp:135:48: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'long unsigned int'} [-Wsign-compare] + 135 | if (!inFirstBlock && lineInBlock == expectedNumSequences) { + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/snp_annot_info.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -23293,17 +23311,64 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_nexus.cpp -o aln_scanner_nexus.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_phylip.cpp -o aln_scanner_phylip.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_sequin.cpp -o aln_scanner_sequin.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_multalign.cpp -o aln_scanner_multalign.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/fasta_aln_builder.cpp -o fasta_aln_builder.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/fasta_reader_utils.cpp -o fasta_reader_utils.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_formatguess.cpp: In member function 'bool ncbi::objects::CAlnFormatGuesser::xSampleIsClustal(TSample&, ncbi::objects::CPeekAheadStream&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_formatguess.cpp:137:23: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'long unsigned int'} [-Wsign-compare] + 137 | if (lineCount < sample.size()) { + | ~~~~~~~~~~^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_formatguess.cpp: In member function 'bool ncbi::objects::CAlnFormatGuesser::xSampleIsFastaGap(const TSample&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_formatguess.cpp:176:15: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'long unsigned int'} [-Wsign-compare] + 176 | for ( ; i < sample.size(); ++i) { + | ~~^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_formatguess.cpp:181:11: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'long unsigned int'} [-Wsign-compare] + 181 | if (i < sample.size()) { + | ~~^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_formatguess.cpp: In member function 'bool ncbi::objects::CAlnFormatGuesser::xSampleIsSequin(const TSample&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_formatguess.cpp:234:29: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'long unsigned int'} [-Wsign-compare] + 234 | for (int index=0; index < tokens.size(); ++index) { + | ~~~~~~^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_formatguess.cpp: In member function 'bool ncbi::objects::CAlnFormatGuesser::xSampleIsMultAlign(const TSample&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_formatguess.cpp:258:23: warning: comparison of integer expressions of different signedness: 'std::vector >::size_type' {aka 'long unsigned int'} and 'int' [-Wsign-compare] + 258 | if (sample.size() < lineIndex + 4) { + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_formatguess.cpp:295:22: warning: comparison of integer expressions of different signedness: 'long unsigned int' and 'int' [-Wsign-compare] + 295 | return (dataSize == (endOffset - startOffset + 1)); + | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/id2/ID2S_Reply_Get_Chunk_.cpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/id2/id2___.cpp:2: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_clustal.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_clustal.cpp:33: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_annot_info.cpp:62: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -23311,7 +23376,13 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_sequin.cpp:73:33: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] 73 | if (lineInBlock != mSeqIds.size()) { | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_sequin.cpp:156:29: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] + -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/annot_types_ci.cpp -o annot_types_ci.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_loc_cvt.cpp -o seq_loc_cvt.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/annot_selector.cpp -o annot_selector.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_descr_ci.cpp -o seq_descr_ci.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/feat_ci.cpp -o feat_ci.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/graph_ci.cpp -o graph_ci.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/sha/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_sequin.cpp:156:29: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] 156 | if (lineInBlock >= mSeqIds.size()) { | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_sequin.cpp:186:32: warning: comparison of integer expressions of different signedness: 'int' and 'std::__cxx11::basic_string::size_type' {aka 'long unsigned int'} [-Wsign-compare] @@ -23324,6 +23395,10 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_sequin.cpp:264:42: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'long unsigned int'} [-Wsign-compare] 264 | for (auto curBlock = 1; curBlock < tokens.size(); ++curBlock) { | ~~~~~~~~~^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_clustal.cpp: In member function 'void ncbi::objects::CAlnScannerClustal::sProcessClustalDataLine(const std::vector >&, int, int, int, bool, int&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_clustal.cpp:296:27: warning: comparison of integer expressions of different signedness: 'long unsigned int' and 'int' [-Wsign-compare] + 296 | if (currentLineLength != blockLineLength) { + | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/track_data.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] @@ -23434,6 +23509,20 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/id2/ID2S_Reply_Get_Chunk_.cpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/id2/id2___.cpp:2: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:36: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/reader_data.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] @@ -23544,8 +23633,10 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/annot_types_ci.cpp:34: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/seq_align_mapper.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_loc_cvt.cpp:37: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -23555,7 +23646,8 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/seq_loc_cvt.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_loc_cvt.cpp:34: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -23571,50 +23663,92 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/seq_align_mapper.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_loc_cvt.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_loc_cvt.cpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/priority.hpp:153:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 153 | auto_ptr m_Sub_I; | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_fastagap.cpp:53: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/seq_loc_cvt.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_loc_cvt.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_fastagap.cpp:52: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_nexus.cpp:34: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_nexus.cpp:33: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:53: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_fastagap.cpp: In member function 'virtual void ncbi::objects::CAlnScannerFastaGap::xImportAlignmentData(ncbi::objects::CSequenceInfo&, ncbi::objects::CLineInput&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_fastagap.cpp:121:41: warning: comparison of integer expressions of different signedness: 'long unsigned int' and 'int' [-Wsign-compare] + 121 | if (currentDataSize != expectedDataSize) { + | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/annot_types_ci.cpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:103:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 103 | auto_ptr m_Indices; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/feat_ci.cpp:34: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:36: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:154:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 154 | auto_ptr m_Indices; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ + -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/getfeature.cpp -o getfeature.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/gff_reader.cpp -o gff_reader.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/track_data.cpp -o track_data.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/reader_data.cpp -o reader_data.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/microarray_reader.cpp -o microarray_reader.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/phrap.cpp -o phIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/seq_align_mapper.hpp:42, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_map_switch.cpp:39: @@ -23647,47 +23781,35 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/snp_annot_info.cpp:36: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/annot_selector.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 771 | auto_ptr m_BaseTSE; | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ - -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/getfeature.cpp -o getfeature.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/gff_reader.cpp -o gff_reader.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/track_data.cpp -o track_data.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/reader_data.cpp -o reader_data.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/microarray_reader.cpp -o microarray_reader.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/phrap.cpp -o phIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/feat_ci.cpp:34: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_name.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_selector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/annot_selector.cpp:33: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/feat_ci.cpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:103:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 103 | auto_ptr m_Indices; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:154:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 154 | auto_ptr m_Indices; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/graph_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/graph_ci.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/annot_types_ci.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -23701,14 +23823,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_loc_cvt.cpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/priority.hpp:153:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 153 | auto_ptr m_Sub_I; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ @@ -23721,6 +23835,30 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/feat_ci.cpp:42: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/fasta_reader_utils.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbictype.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistre.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_stack.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/fasta_reader_utils.cpp:36: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/reader_base.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] @@ -23831,62 +23969,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_annot_info.cpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/seq_annot_info.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_annot_info.cpp:37: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ - -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/annot_types_ci.cpp -o annot_types_ci.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_loc_cvt.cpp -o seq_loc_cvt.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/annot_selector.cpp -o annot_selector.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_descr_ci.cpp -o seq_descr_ci.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/feat_ci.cpp -o feat_ci.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/graph_ci.cpp -o graph_ci.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/shaIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/feat_ci.cpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:103:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 103 | auto_ptr m_Indices; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:154:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 154 | auto_ptr m_Indices; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_annot_info.cpp:45: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_annot_info.cpp:46: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:103:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 103 | auto_ptr m_Indices; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:154:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 154 | auto_ptr m_Indices; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_table_info.cpp:44: @@ -23904,14 +23986,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:53: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ @@ -23924,17 +23998,15 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/annot_types_ci.cpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:103:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 103 | auto_ptr m_Indices; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/feat_ci.cpp:42: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:154:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 154 | auto_ptr m_Indices; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -23968,74 +24040,13 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_annot_info.cpp:62: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/fasta_reader_utils.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbictype.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistre.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_stack.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/fasta_reader_utils.cpp:36: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/gff_reader.cpp:60: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiutil.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/gff_reader.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/gff_reader.cpp:35: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ rap.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/reader_base.cpp -o reader_base.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/readfeat.cpp -o readfeat.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/rm_reader.cpp -o rm_reader.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/wiggle_reader.cpp -o wiggle_reader.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/gff3_reader.cpp -o gff3_reader.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-b/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/gff_reader.cpp:472:18: warning: 'CGFFReader' is deprecated [-Wdeprecated-declarations] - 472 | CRef - | ^~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/gff_reader.hpp:71:44: note: declared here - 71 | class NCBI_DEPRECATED NCBI_XOBJREAD_EXPORT CGFFReader - | ^~~~~~~~~~ -re/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/annot_object.cpp -o annot_object.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-bre/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/annot_object.cpp -o annot_object.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/annot_object_index.cpp -o annot_object_index.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/annot_ci.cpp -o annot_ci.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/tse_info.cpp -o tse_info.o @@ -24045,7 +24056,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/reader_base.cpp:99: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/gff_reader.cpp:60: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ @@ -24053,14 +24064,18 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/reader_base.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiutil.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/gff_reader.hpp:45, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/gff_reader.cpp:35: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/rm_reader.cpp: In member function 'ncbi::CRef ncbi::objects::CRepeatToFeat::operator()(const ncbi::objects::IRepeatRegion&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/rm_reader.cpp:554:44: warning: enum constant in boolean context [-Wint-in-bool-context] - 554 | if (fRemoveRedundancy && m_Library && - | ^~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/gff_reader.cpp:472:18: warning: 'CGFFReader' is deprecated [-Wdeprecated-declarations] + 472 | CRef + | ^~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/gff_reader.hpp:71:44: note: declared here + 71 | class NCBI_DEPRECATED NCBI_XOBJREAD_EXPORT CGFFReader + | ^~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_ci.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/annot_ci.cpp:34: @@ -24089,6 +24104,22 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/reader_base.cpp:99: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/reader_base.cpp:34: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/tse_info.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] @@ -24106,6 +24137,26 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/rm_reader.cpp: In member function 'ncbi::CRef ncbi::objects::CRepeatToFeat::operator()(const ncbi::objects::IRepeatRegion&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/rm_reader.cpp:554:44: warning: enum constant in boolean context [-Wint-in-bool-context] + 554 | if (fRemoveRedundancy && m_Library && + | ^~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/readfeat.cpp: In member function 'bool ncbi::objects::CFeatureTableReader_Imp::x_AddQualifierToCdregion(ncbi::CRef, ncbi::objects::CSeqFeatData&, EQual, const std::string&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/readfeat.cpp:1406:22: warning: catching polymorphic type 'class ncbi::CStringException' by value [-Wcatch-value=] + 1406 | } catch( CStringException ) { + | ^~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/priority.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/priority.hpp:153:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 153 | auto_ptr m_Sub_I; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/priority.hpp:37: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] @@ -24114,7 +24165,28 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/tse_info.cpp:44: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/tse_info_object.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info_object.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/tse_info_object.cpp:35: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +PIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_base_info.cpp -o bioseq_base_info.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_set_info.cpp -o bioseq_set_info.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_info.cpp -o bioseq_info.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/data_source.cpp -o data_source.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/priority.cpp -o priority.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/prefetch_impl.cpp -o prefetch_impl.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/tse_info.cpp:44: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:103:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 103 | auto_ptr m_Indices; | ^~~~~~~~ @@ -24127,7 +24199,7 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_entry_info.cpp:36: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_set_info.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 771 | auto_ptr m_BaseTSE; | ^~~~~~~~ @@ -24139,11 +24211,11 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info_object.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/seq_entry_info.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_entry_info.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_set_info.cpp:35: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/tse_info_object.cpp:36: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_base_info.cpp:40: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 771 | auto_ptr m_BaseTSE; | ^~~~~~~~ @@ -24153,77 +24225,35 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info_object.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/tse_info_object.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/bioseq_base_info.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_base_info.cpp:35: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id2' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/id2/id2__.cpp -o id2__.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/id2/id2___.cpp -o id2___.o -/bin/rm -f libid2.so .libid2.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libid2.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC id2__.o id2___.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lseqsplit -lseq -lxser -lxncbi -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libid2.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libid2.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libid2.so -/bin/ln -f .id2.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.id2.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id2' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id2' -cd objtools/pubseq_gateway/client/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=psg_client UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/pubseq_gateway/client' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/readfeat.cpp: In member function 'bool ncbi::objects::CFeatureTableReader_Imp::x_AddQualifierToCdregion(ncbi::CRef, ncbi::objects::CSeqFeatData&, EQual, const std::string&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/readfeat.cpp:1406:22: warning: catching polymorphic type 'class ncbi::CStringException' by value [-Wcatch-value=] - 1406 | } catch( CStringException ) { - | ^~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_entry_info.cpp:40: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/prefetch_impl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/prefetch_impl.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/pubseq_gateway/client' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/pubseq_gateway/client' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/pubseq_gateway/client' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: *** No rule to make target '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/LIBUV.enabled', needed by 'requirements'. Stop. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/pubseq_gateway/client' -NOTE: skipping project "psg_client" due to unmet requirements -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/pubseq_gateway/client' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/pubseq_gateway/client' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/pubseq_gateway/client' -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/priority.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/priority.hpp:153:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 153 | auto_ptr m_Sub_I; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/priority.hpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/prefetch_impl.hpp:36: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_base_info.cpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_set_info.cpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/bioseq_base_info.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_base_info.cpp:35: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_set_info.cpp:36: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_entry_info.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 771 | auto_ptr m_BaseTSE; | ^~~~~~~~ @@ -24235,19 +24265,13 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info_object.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/seq_entry_info.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_set_info.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_entry_info.cpp:35: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -PIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_base_info.cpp -o bioseq_base_info.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_set_info.cpp -o bioseq_set_info.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_info.cpp -o bioseq_info.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/data_source.cpp -o data_source.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/priority.cpp -o priority.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/prefetch_impl.cpp -o prefetch_impl.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_set_info.cpp:39: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_entry_info.cpp:40: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ @@ -24279,6 +24303,52 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id2' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/id2/id2__.cpp -o id2__.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/id2/id2___.cpp -o id2___.o +/bin/rm -f libid2.so .libid2.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libid2.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC id2__.o id2___.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lseqsplit -lseq -lxser -lxncbi -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libid2.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libid2.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libid2.so +/bin/ln -f .id2.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.id2.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id2' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blast/blast__.cpp -o blast__.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blast/blast___.cpp -o blast___.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blast/names.cpp -o names.o +/bin/rm -f libxnetblast.so .libxnetblast.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libxnetblast.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC blast__.o blast___.o names.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lscoremat -lseqset -lseq -lxser -lxncbi -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libxnetblast.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libxnetblast.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libxnetblast.so +/bin/ln -f .xnetblast.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.xnetblast.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id2' +cd objtools/pubseq_gateway/client/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=psg_client UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/pubseq_gateway/client' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' +cd objects/blast/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=xnetblastcli UNIX_PROJ="" sources= configurables=configurables.null +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=blast_unit_test_util UNIX_PROJ="" sources= configurables=configurables.null +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=seqalign_util UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +cd app/blast/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=blast_app_util UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/pubseq_gateway/client' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/pubseq_gateway/client' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/pubseq_gateway/client' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: *** No rule to make target '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/LIBUV.enabled', needed by 'requirements'. Stop. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/pubseq_gateway/client' +NOTE: skipping project "psg_client" due to unmet requirements +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/pubseq_gateway/client' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/data_source.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] @@ -24296,43 +24366,16 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -last+-2.12.0+ds/c++/src/objtools/readers/gtf_reader.cpp -o gtf_reader.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/gff3_location_merger.cpp -o gff3_location_merger.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/gtf_location_merger.cpp -o gtf_location_merger.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/gff_base_columns.cpp -o gff_base_columns.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/gff2_data.cpp -o gff2_data.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/gff2_reader.cpp -o gff2_reader.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/buildIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/prefetch_impl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/prefetch_impl.cpp:34: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/prefetch_impl.hpp:36: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/data_source.cpp:71: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/prefetch_impl.cpp:37: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/pubseq_gateway/client' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ @@ -24345,60 +24388,46 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blast/blast__.cpp -o blast__.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blast/blast___.cpp -o blast___.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blast/names.cpp -o names.o -/bin/rm -f libxnetblast.so .libxnetblast.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libxnetblast.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC blast__.o blast___.o names.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lscoremat -lseqset -lseq -lxser -lxncbi -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libxnetblast.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libxnetblast.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libxnetblast.so -/bin/ln -f .xnetblast.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.xnetblast.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' -cd objects/blast/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=xnetblastcli UNIX_PROJ="" sources= configurables=configurables.null -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=blast_unit_test_util UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=seqalign_util UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -cd app/blast/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=blast_app_util UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blast TMPL=xnetblastcli -w -j12 --jobserver-auth=7,8 all make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/pubseq_gateway/client' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=blast_unit_test_util -w -j12 --jobserver-auth=7,8 all +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast TMPL=blast_app_util -w -j12 --jobserver-auth=7,8 all +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=blast_unit_test_util -w -j12 --jobserver-auth=7,8 all +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blast TMPL=xnetblastcli -w -j12 --jobserver-auth=7,8 all /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=seqalign_util -w -j12 --jobserver-auth=7,8 all make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: warning: -j12 forced in submake: resetting jobserver mode. +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, @@ -24511,6 +24540,44 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:53, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/priority.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/data_source.cpp:71: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blast_test_util.cpp:61: @@ -24622,23 +24689,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:53, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/priority.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, @@ -24771,18 +24821,62 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ --D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/prefetch_manager.cpp -o prefetch_manager.o +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/prefetch_impl.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/prefetch_impl.cpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/priority.hpp:153:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 153 | auto_ptr m_Sub_I; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +last+-2.12.0+ds/c++/src/objtools/readers/gtf_reader.cpp -o gtf_reader.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/gff3_location_merger.cpp -o gff3_location_merger.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/gtf_location_merger.cpp -o gtf_location_merger.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/gff_base_columns.cpp -o gff_base_columns.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/gff2_data.cpp -o gff2_data.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/gff2_reader.cpp -o gff2_reader.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build-D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/prefetch_manager.cpp -o prefetch_manager.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/prefetch_manager_impl.cpp -o prefetch_manager_impl.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/prefetch_actions.cpp -o prefetch_actions.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/scope.cpp -o scope.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/heap_scope.cpp -o heap_scope.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/scope_impl.cpp -o scope_impl.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/heap_scope.cpp:42: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/priority.hpp:153:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 153 | auto_ptr m_Sub_I; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/heap_scope.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/heap_scope.cpp:41: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/prefetch_impl.cpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/scope.cpp:41: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:43: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -24798,52 +24892,55 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_app_util.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_app_util.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/scope.cpp:46: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/priority.hpp:153:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 153 | auto_ptr m_Sub_I; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/prefetch_actions.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/prefetch_actions.cpp:34: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:45: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/prefetch_manager.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/prefetch_actions.hpp:36: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/prefetch_impl.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/prefetch_impl.cpp:40: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/prefetch_actions.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/priority.hpp:153:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 153 | auto_ptr m_Sub_I; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/gff2_reader.cpp: In member function 'bool ncbi::objects::CGff2Reader::xGetStartsOnPlusStrand(ncbi::TSeqPos, const std::vector >&, bool, std::vector&) const': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/gff2_reader.cpp:834:21: warning: comparison of integer expressions of different signedness: 'int' and 'const long unsigned int' [-Wsign-compare] - 834 | for (auto i=0; i >&, ncbi::objects::ENa_strand, ncbi::objects::ENa_strand, ncbi::TSeqPos, ncbi::TSeqPos, const ncbi::objects::CGff2Record&, ncbi::objects::CSeq_align_Base::C_Segs::TDenseg&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/gff2_reader.cpp:923:21: warning: comparison of integer expressions of different signedness: 'int' and 'const size_t' {aka 'const long unsigned int'} [-Wsign-compare] - 923 | for (auto i=0; i)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/gff2_reader.cpp:1008:21: warning: comparison of integer expressions of different signedness: 'int' and 'const long unsigned int' [-Wsign-compare] - 1008 | for (auto i=0; i class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 153 | auto_ptr m_Sub_I; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/scope_impl.cpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, @@ -24851,28 +24948,26 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/heap_scope.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/heap_scope.cpp:41: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:43: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blast/blastclient_.cpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:36: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/scope_info.cpp:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/priority.hpp:153:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 153 | auto_ptr m_Sub_I; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_app_util.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_app_util.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, @@ -24880,65 +24975,75 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_info.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/scope_info.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:45: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/gvf_reader.cpp -o gvf_reader.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/vcf_reader.cpp -o vcf_reader.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/psl_reader.cpp -o psl_reader.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/psl_data.cpp -o psl_data.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_reader.cpp -o bed_reader.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_autosql.cpp -o bed_autosql.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/prefetch_actions.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/prefetch_actions.cpp:34: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:53: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blast/blastclient_.cpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/prefetch_manager.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/prefetch_actions.hpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:36: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/scope_impl.cpp:46: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:53: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/blastdb/bdbloader.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blast_test_util.hpp:56, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blast_test_util.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blast_test_util.hpp:41: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/prefetch_actions.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/scope_info.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/priority.hpp:153:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 153 | auto_ptr m_Sub_I; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_info.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/scope_info.cpp:35: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -24961,6 +25066,14 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/scope_impl.cpp:51: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ @@ -24973,14 +25086,41 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:53: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/blastdb/bdbloader.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blast_test_util.hpp:56, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blast_test_util.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blast_test_util.hpp:41: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/seqalign_cmp.cpp -o seqalign_cmp.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/seqalign_set_convert.cpp -o seqalign_set_convert.o +/bin/rm -f libseqalign_util.a .libseqalign_util.a.stamp +ar cr libseqalign_util.a seqalign_cmp.o seqalign_set_convert.o +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libseqalign_util.a /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libseqalign_util.a /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libseqalign_util.a +/bin/ln -f .seqalign_util.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.seqalign_util.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/gvf_reader.cpp -o gvf_reader.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/vcf_reader.cpp -o vcf_reader.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/psl_reader.cpp -o psl_reader.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/psl_data.cpp -o psl_data.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_reader.cpp -o bed_reader.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_autosql.cpp -o bed_autosql.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/re/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/vcf_reader.cpp: In member function 'virtual void ncbi::objects::CVcfReader::xSetFileFormat(const std::string&, ncbi::objects::CSeq_annot&, bool&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/vcf_reader.cpp:332:27: warning: catching polymorphic type 'class std::exception' by value [-Wcatch-value=] + 332 | catch (std::exception except) { + | ^~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:47, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/tse_handle.cpp:38: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/priority.hpp:153:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] @@ -24997,30 +25137,24 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/scope.cpp:41: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_app_util.hpp:40: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:43: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:53: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ @@ -25033,29 +25167,25 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/scope_info.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/test_objmgr.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/scope.cpp:46: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/scope_impl.cpp:58: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/priority.hpp:153:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 153 | auto_ptr m_Sub_I; | ^~~~~~~~ @@ -25064,17 +25194,20 @@ | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_app_util.hpp:40: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/scope_info.cpp:37: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 65 | auto_ptr m_FileStream; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ @@ -25087,16 +25220,40 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/test_objmgr.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 156 | auto_ptr m_DecompressIStream; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 157 | auto_ptr m_CompressOStream; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 875 | auto_ptr m_DecompressIStream; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/test_objmgr.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/scope_impl.cpp:41: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_map.cpp:38: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -25104,9 +25261,12 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:43: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_id_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_id.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/seq_id_handle.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_map.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_map.cpp:36: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -25122,14 +25282,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:53: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, @@ -25140,14 +25292,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ @@ -25160,27 +25304,16 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:53: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_app_util.hpp:45: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 743 | auto_ptr m_ObjectStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/seqalign_cmp.cpp -o seqalign_cmp.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/seqalign_set_convert.cpp -o seqalign_set_convert.o -/bin/rm -f libseqalign_util.a .libseqalign_util.a.stamp -ar cr libseqalign_util.a seqalign_cmp.o seqalign_set_convert.o -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libseqalign_util.a /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libseqalign_util.a /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libseqalign_util.a -/bin/ln -f .seqalign_util.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.seqalign_util.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_map.cpp:38: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_map_ci.cpp:40: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -25193,7 +25326,8 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_id.hpp:42, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/seq_id_handle.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_map.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_map.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_map_ci.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_map_ci.cpp:36: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -25209,62 +25343,94 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_entry_ci.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/priority.hpp:153:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 153 | auto_ptr m_Sub_I; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_entry_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_entry_ci.cpp:34: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/vcf_reader.cpp: In member function 'virtual void ncbi::objects::CVcfReader::xSetFileFormat(const std::string&, ncbi::objects::CSeq_annot&, bool&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/vcf_reader.cpp:332:27: warning: catching polymorphic type 'class std::exception' by value [-Wcatch-value=] - 332 | catch (std::exception except) { - | ^~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 65 | auto_ptr m_FileStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/psl_data.cpp: In member function 'void ncbi::objects::CPslData::Initialize(const ncbi::objects::CReaderBase::TReaderLine&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/psl_data.cpp:144:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] + 144 | if (mBlockCount != mBlockSizes.size()) { + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/psl_data.cpp:150:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] + 150 | if (mBlockCount != mBlockStartsQ.size()) { + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/psl_data.cpp:156:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] + 156 | if (mBlockCount != mBlockStartsT.size()) { + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:53: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/scope_impl.cpp:46: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_app_util.hpp:50: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 108 | auto_ptr m_memGi2GeneFile; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 156 | auto_ptr m_DecompressIStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 111 | auto_ptr m_memGene2OffsetFile; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 157 | auto_ptr m_CompressOStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 114 | auto_ptr m_memGi2OffsetFile; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 875 | auto_ptr m_DecompressIStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 117 | auto_ptr m_memGene2GiFile; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:53: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; - | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_map.cpp:43: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1554 | static auto_ptr m_GeneInfoReader; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/gff2_reader.cpp: In member function 'bool ncbi::objects::CGff2Reader::xGetStartsOnPlusStrand(ncbi::TSeqPos, const std::vector >&, bool, std::vector&) const': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/gff2_reader.cpp:834:21: warning: comparison of integer expressions of different signedness: 'int' and 'const long unsigned int' [-Wsign-compare] + 834 | for (auto i=0; i >&, ncbi::objects::ENa_strand, ncbi::objects::ENa_strand, ncbi::TSeqPos, ncbi::TSeqPos, const ncbi::objects::CGff2Record&, ncbi::objects::CSeq_align_Base::C_Segs::TDenseg&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/gff2_reader.cpp:923:21: warning: comparison of integer expressions of different signedness: 'int' and 'const size_t' {aka 'const long unsigned int'} [-Wsign-compare] + 923 | for (auto i=0; i)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/gff2_reader.cpp:1008:21: warning: comparison of integer expressions of different signedness: 'int' and 'const long unsigned int' [-Wsign-compare] + 1008 | for (auto i=0; i class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 654 | auto_ptr m_GeneInfoReader; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -25285,39 +25451,44 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:48, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blast_test_util.cpp:57: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 108 | auto_ptr m_memGi2GeneFile; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 111 | auto_ptr m_memGene2OffsetFile; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/tse_handle.cpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 114 | auto_ptr m_memGi2OffsetFile; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 117 | auto_ptr m_memGene2GiFile; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:49: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1554 | static auto_ptr m_GeneInfoReader; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_map.cpp:43: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -25330,6 +25501,12 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 654 | auto_ptr m_GeneInfoReader; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ @@ -25342,83 +25519,67 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blast/blastclient.cpp -o blastclient.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blast/blastclient_.cpp -o blastclient_.o -/bin/rm -f libxnetblastcli.so .libxnetblastcli.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libxnetblastcli.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC blastclient.o blastclient_.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxnetblast -lxconnect -lxser -lxutil -lxncbi -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libxnetblastcli.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libxnetblastcli.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libxnetblastcli.so -/bin/ln -f .xnetblastcli.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.xnetblastcli.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/test_objmgr.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/psl_data.cpp: In member function 'void ncbi::objects::CPslData::Initialize(const ncbi::objects::CReaderBase::TReaderLine&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/psl_data.cpp:144:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] - 144 | if (mBlockCount != mBlockSizes.size()) { - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/psl_data.cpp:150:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] - 150 | if (mBlockCount != mBlockStartsQ.size()) { - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/psl_data.cpp:156:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] - 156 | if (mBlockCount != mBlockStartsT.size()) { - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -cd objtools/blast/services/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=blast_services UNIX_PROJ="" sources= configurables=configurables.null -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:48, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blast_test_util.cpp:57: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 108 | auto_ptr m_memGi2GeneFile; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/tse_handle.cpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 111 | auto_ptr m_memGene2OffsetFile; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 114 | auto_ptr m_memGi2OffsetFile; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 117 | auto_ptr m_memGene2GiFile; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_app_util.cpp:44: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/search_strategy.hpp:178:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 178 | auto_ptr m_Data; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/scope_impl.cpp:51: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/search_strategy.hpp:181:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 181 | auto_ptr m_OptionsBuilder; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:49: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1554 | static auto_ptr m_GeneInfoReader; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ +ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/scope_info.cpp -o scope_info.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/tse_handle.cpp -o tse_handle.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_map.cpp -o seq_map.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_map_ci.cpp -o seq_map_ci.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_entry_ci.cpp -o seq_entry_ci.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_annot_ci.cpp -o seq_annot_ci.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_table_ci.cpp -o seq_table_ci.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-formake[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blast/blastclient.cpp -o blastclient.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blast/blastclient_.cpp -o blastclient_.o +/bin/rm -f libxnetblastcli.so .libxnetblastcli.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libxnetblastcli.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC blastclient.o blastclient_.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxnetblast -lxconnect -lxser -lxutil -lxncbi -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libxnetblastcli.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libxnetblastcli.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libxnetblastcli.so +/bin/ln -f .xnetblastcli.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.xnetblastcli.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' +cd objtools/blast/services/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=blast_services UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services' @@ -25426,63 +25587,19 @@ make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services' /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/services TMPL=blast_services -w -j12 --jobserver-auth=7,8 all -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 654 | auto_ptr m_GeneInfoReader; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ make[5]: warning: -j12 forced in submake: resetting jobserver mode. -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_app_util.hpp:45: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 743 | auto_ptr m_ObjectStream; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_app_util.hpp:50: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 108 | auto_ptr m_memGi2GeneFile; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 111 | auto_ptr m_memGene2OffsetFile; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 114 | auto_ptr m_memGi2OffsetFile; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 117 | auto_ptr m_memGene2GiFile; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1554 | static auto_ptr m_GeneInfoReader; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/scope_impl.cpp:58: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/priority.hpp:153:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 153 | auto_ptr m_Sub_I; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:53: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 654 | auto_ptr m_GeneInfoReader; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -25495,29 +25612,17 @@ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 92 | mColName + mColScore != -6); | ~~~~~~~~~~~~~~~~~~~~~^~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_reader.cpp: In member function 'virtual bool ncbi::objects::CBedReader::xDetermineLikelyColumnCount(ncbi::objects::CLinePreBuffer&, ncbi::objects::ILineErrorListener*)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_reader.cpp:484:35: warning: comparison of integer expressions of different signedness: 'std::vector >::size_type' {aka 'long unsigned int'} and 'int' [-Wsign-compare] - 484 | if (blockSizes.size() != blockCount) { - | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_reader.cpp:505:36: warning: comparison of integer expressions of different signedness: 'std::vector >::size_type' {aka 'long unsigned int'} and 'int' [-Wsign-compare] - 505 | if (blockStarts.size() != blockCount) { - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_app_util.cpp:44: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/search_strategy.hpp:178:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 178 | auto_ptr m_Data; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/search_strategy.hpp:181:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 181 | auto_ptr m_OptionsBuilder; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_app_util.cpp:49: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_map_ci.cpp:40: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_annot_ci.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_annot_ci.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -25525,13 +25630,9 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_id_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_id.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/seq_id_handle.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_map.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_map_ci.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_map_ci.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_annot_ci.hpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -25547,6 +25648,40 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_reader.cpp: In member function 'virtual bool ncbi::objects::CBedReader::xDetermineLikelyColumnCount(ncbi::objects::CLinePreBuffer&, ncbi::objects::ILineErrorListener*)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_reader.cpp:484:35: warning: comparison of integer expressions of different signedness: 'std::vector >::size_type' {aka 'long unsigned int'} and 'int' [-Wsign-compare] + 484 | if (blockSizes.size() != blockCount) { + | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_reader.cpp:505:36: warning: comparison of integer expressions of different signedness: 'std::vector >::size_type' {aka 'long unsigned int'} and 'int' [-Wsign-compare] + 505 | if (blockStarts.size() != blockCount) { + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_autosql.cpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_autosql.cpp:33: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_autosql.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_autosql.cpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_autosql_standard.hpp: In member function 'bool ncbi::objects::CAutoSqlStandardFields::ContainsInfo() const': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_autosql_standard.hpp:92:34: warning: comparison of integer expressions of different signedness: 'long unsigned int' and 'int' [-Wsign-compare] + 91 | return (mColChrom + mColSeqStart + mColSeqStop + mColStrand + + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 92 | mColName + mColScore != -6); + | ~~~~~~~~~~~~~~~~~~~~~^~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_autosql_standard.cpp:40: @@ -25604,62 +25739,7 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_autosql_standard.cpp:209:19: warning: comparison of integer expressions of different signedness: 'const size_t' {aka 'const long unsigned int'} and 'int' [-Wsign-compare] 209 | if (mColScore != -1) { | ~~~~~~~~~~^~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_entry_ci.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/priority.hpp:153:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 153 | auto_ptr m_Sub_I; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_entry_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_entry_ci.cpp:34: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_autosql.cpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_autosql.cpp:33: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_app_util.cpp:49: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_autosql.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_autosql.cpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_autosql_standard.hpp: In member function 'bool ncbi::objects::CAutoSqlStandardFields::ContainsInfo() const': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_autosql_standard.hpp:92:34: warning: comparison of integer expressions of different signedness: 'long unsigned int' and 'int' [-Wsign-compare] - 91 | return (mColChrom + mColSeqStart + mColSeqStop + mColStrand + - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 92 | mColName + mColScore != -6); - | ~~~~~~~~~~~~~~~~~~~~~^~~~~ -ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/scope_info.cpp -o scope_info.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/tse_handle.cpp -o tse_handle.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_map.cpp -o seq_map.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_map_ci.cpp -o seq_map_ci.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_entry_ci.cpp -o seq_entry_ci.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_annot_ci.cpp -o seq_annot_ci.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_table_ci.cpp -o seq_table_ci.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-for/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 449 | auto_ptr m_ConfigFile; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here @@ -25671,41 +25751,9 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_autosql_custom.cpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_autosql_custom.cpp:33: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:414:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 414 | auto_ptr m_SamFormatter; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_app_util.cpp: In function 'void ncbi::CheckMTByQueries_DBSize(CRef&, const blast::CBlastOptions&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_app_util.cpp:1011:18: warning: unused variable 'prog' [-Wunused-variable] - 1011 | EProgram prog = opt.GetProgram(); - | ^~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_autosql.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_autosql_custom.cpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_autosql_standard.hpp: In member function 'bool ncbi::objects::CAutoSqlStandardFields::ContainsInfo() const': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_autosql_standard.hpp:92:34: warning: comparison of integer expressions of different signedness: 'long unsigned int' and 'int' [-Wsign-compare] - 91 | return (mColChrom + mColSeqStart + mColSeqStop + mColStrand + - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 92 | mColName + mColScore != -6); - | ~~~~~~~~~~~~~~~~~~~~~^~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_annot_ci.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_annot_ci.cpp:34: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_table_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_table_ci.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -25715,15 +25763,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_annot_ci.hpp:37: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:53: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; - | ^~~~~~~~ + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:36: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -25739,24 +25779,35 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:414:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 414 | auto_ptr m_SamFormatter; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_app_util.cpp: In function 'void ncbi::CheckMTByQueries_DBSize(CRef&, const blast::CBlastOptions&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_app_util.cpp:1011:18: warning: unused variable 'prog' [-Wunused-variable] + 1011 | EProgram prog = opt.GetProgram(); + | ^~~~ producible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_autosql_standard.cpp -o bed_autosql_standard.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_autosql_custom.cpp -o bed_autosql_custom.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_column_data.cpp -o bed_column_data.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/best_feat_finder.cpp -o best_feat_finder.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/source_mod_parser.cpp -o source_mod_parser.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/fasta_exception.cpp -o fasta_exception.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_app_util.cpp: At global scope: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_app_util.cpp:127:15: warning: 'std::string ncbi::s_FindBlastDbDataLoaderName(const std::string&, bool)' defined but not used [-Wunused-function] - 127 | static string s_FindBlastDbDataLoaderName(const string& dbname, bool is_protein) - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUGIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_autosql_custom.cpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_autosql_custom.cpp:33: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/ucscregion_reader.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] @@ -25867,35 +25918,31 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_table_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_table_ci.cpp:34: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:36: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/test_objmgr.cpp -o test_objmgr.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blast_test_util.cpp -o blast_test_util.o +/bin/rm -f libblast_unit_test_util.a .libblast_unit_test_util.a.stamp +ar cr libblast_unit_test_util.a test_objmgr.o blast_test_util.o +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libblast_unit_test_util.a /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libblast_unit_test_util.a /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libblast_unit_test_util.a +/bin/ln -f .blast_unit_test_util.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.blast_unit_test_util.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_autosql.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_autosql_custom.cpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_autosql_standard.hpp: In member function 'bool ncbi::objects::CAutoSqlStandardFields::ContainsInfo() const': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_autosql_standard.hpp:92:34: warning: comparison of integer expressions of different signedness: 'long unsigned int' and 'int' [-Wsign-compare] + 91 | return (mColChrom + mColSeqStart + mColSeqStop + mColStrand + + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 92 | mColName + mColScore != -6); + | ~~~~~~~~~~~~~~~~~~~~~^~~~~ +mat-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_entry_handle.cpp -o seq_entry_handle.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_set_handle.cpp -o bioseq_set_handle.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_handle.cpp -o bioseq_handle.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_annot_handle.cpp -o seq_annot_handle.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/align_ci.cpp -o align_ci.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/data_loader.cpp -o data_loader.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/shareIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_annot_ci.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_entry_handle.cpp:36: @@ -25933,16 +25980,25 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/test_objmgr.cpp -o test_objmgr.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blast_test_util.cpp -o blast_test_util.o -/bin/rm -f libblast_unit_test_util.a .libblast_unit_test_util.a.stamp -ar cr libblast_unit_test_util.a test_objmgr.o blast_test_util.o -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libblast_unit_test_util.a /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libblast_unit_test_util.a /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libblast_unit_test_util.a -/bin/ln -f .blast_unit_test_util.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.blast_unit_test_util.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_app_util.cpp: At global scope: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_app_util.cpp:127:15: warning: 'std::string ncbi::s_FindBlastDbDataLoaderName(const std::string&, bool)' defined but not used [-Wunused-function] + 127 | static string s_FindBlastDbDataLoaderName(const string& dbname, bool is_protein) + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/data_loader.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:36: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:53: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] @@ -25959,32 +26015,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/source_mod_parser.cpp: In function 'void ncbi::objects::s_GetPrimerInfo(const CSourceModParser::SMod*, const CSourceModParser::SMod*, std::vector, std::__cxx11::basic_string > >&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/source_mod_parser.cpp:877:20: warning: comparison of integer expressions of different signedness: 'int' and 'const long unsigned int' [-Wsign-compare] - 877 | for (int i=0; i&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/source_mod_parser.cpp:912:25: warning: comparison of integer expressions of different signedness: 'int' and 'long unsigned int' [-Wsign-compare] - 912 | for (auto i=0; i class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] @@ -26005,30 +26035,29 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ - -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/agp_converter.cpp -o agp_converter.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/ucscregion_reader.cpp -o ucscregion_reader.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/struct_cmt_reader.cpp -o struct_cmt_reader.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/mod_reader.cpp -o mod_reader.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/mod_error.cpp -o mod_error.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/descr_mod_apply.cpp -o descr_mod_apply.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-promat-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_entry_handle.cpp -o seq_entry_handle.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_set_handle.cpp -o bioseq_set_handle.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_handle.cpp -o bioseq_handle.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_annot_handle.cpp -o seq_annot_handle.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/align_ci.cpp -o align_ci.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/data_loader.cpp -o data_loader.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/shareIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/mod_reader.cpp:43: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/align_ci.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/align_ci.cpp:34: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/mod_reader.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/align_ci.hpp:36: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -26062,7 +26091,8 @@ | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_set_handle.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_handle.cpp:37: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -26070,25 +26100,8 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/bioseq_set_handle.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_set_handle.cpp:34: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/data_loader.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/bioseq_handle.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_handle.cpp:33: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -26104,16 +26117,21 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_annot_handle.cpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/priority.hpp:153:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 153 | auto_ptr m_Sub_I; + -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/agp_converter.cpp -o agp_converter.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/ucscregion_reader.cpp -o ucscregion_reader.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/struct_cmt_reader.cpp -o struct_cmt_reader.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/mod_reader.cpp -o mod_reader.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/mod_error.cpp -o mod_error.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/descr_mod_apply.cpp -o descr_mod_apply.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-proIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/data_loader.cpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_set_handle.cpp:39: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_annot_handle.cpp:39: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/priority.hpp:153:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 153 | auto_ptr m_Sub_I; | ^~~~~~~~ @@ -26122,8 +26140,7 @@ | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_handle.cpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_set_handle.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -26131,8 +26148,10 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/bioseq_handle.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_handle.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/bioseq_set_handle.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_set_handle.cpp:34: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -26148,17 +26167,28 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/align_ci.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/align_ci.cpp:34: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_set_handle.cpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/priority.hpp:153:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 153 | auto_ptr m_Sub_I; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_handle.cpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/priority.hpp:153:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 153 | auto_ptr m_Sub_I; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/data_loader.cpp:44: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/align_ci.hpp:36: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -26174,14 +26204,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_handle.cpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/priority.hpp:153:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 153 | auto_ptr m_Sub_I; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:53: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] @@ -26198,21 +26220,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/descr_mod_apply.cpp:66: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/descr_mod_apply.cpp:34: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:53: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] @@ -26221,36 +26228,18 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/object_manager.cpp:39: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:45: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/seq_annot_edit_commands.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_annot_handle.cpp:43: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/edit_commands_impl.hpp:276:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 276 | auto_ptr m_Memeto; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/edit_commands_impl.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 322 | auto_ptr m_Memeto; - | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/edit_commands_impl.hpp:367:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 367 | auto_ptr m_Memeto; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:53: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -26263,48 +26252,54 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/services/blast_services.cpp -o blast_services.o -/bin/rm -f libblast_services.so .libblast_services.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libblast_services.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC blast_services.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxnetblastcli -lxnetblast -lxser -lxconnect -lxutil -lxncbi -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libblast_services.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libblast_services.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libblast_services.so -/bin/ln -f .blast_services.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.blast_services.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services' -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:53: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/bioseq_set_edit_commands.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_set_handle.cpp:43: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/edit_commands_impl.hpp:276:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 276 | auto_ptr m_Memeto; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services' -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/edit_commands_impl.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 322 | auto_ptr m_Memeto; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/source_mod_parser.cpp: In function 'void ncbi::objects::s_GetPrimerInfo(const CSourceModParser::SMod*, const CSourceModParser::SMod*, std::vector, std::__cxx11::basic_string > >&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/source_mod_parser.cpp:877:20: warning: comparison of integer expressions of different signedness: 'int' and 'const long unsigned int' [-Wsign-compare] + 877 | for (int i=0; i&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/source_mod_parser.cpp:912:25: warning: comparison of integer expressions of different signedness: 'int' and 'long unsigned int' [-Wsign-compare] + 912 | for (auto i=0; i class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/feature_mod_apply.cpp:45: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/feature_mod_apply.cpp:34: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/edit_commands_impl.hpp:367:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 367 | auto_ptr m_Memeto; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/bioseq_set_edit_commands.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_set_handle.cpp:43: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/seq_annot_edit_commands.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_annot_handle.cpp:43: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/edit_commands_impl.hpp:276:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 276 | auto_ptr m_Memeto; | ^~~~~~~~ @@ -26343,9 +26338,30 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/handle_range.cpp -o handle_range.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/objmgr_exception.cpp -o objmgr_exception.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/handle_range_map.cpp -o handle_range_map.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/object_manager.cpp -o object_manager.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_vector.cpp -o seq_vector.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_vector_ci.cpp -o seq_vector_ci.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-proIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/object_manager.cpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:45: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/message_listener.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/mod_reader.cpp:43: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ @@ -26353,37 +26369,30 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/message_listener.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/message_listener.cpp:35: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/object_manager.cpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/priority.hpp:153:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 153 | auto_ptr m_Sub_I; - | ^~~~~~~~ + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/mod_reader.cpp:33: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/data_loader.cpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_vector.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/bioseq_handle.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:36: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/handle_range.cpp -o handle_range.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/objmgr_exception.cpp -o objmgr_exception.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/handle_range_map.cpp -o handle_range_map.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/object_manager.cpp -o object_manager.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_vector.cpp -o seq_vector.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_vector_ci.cpp -o seq_vector_ci.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-proIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/data_loader.cpp:44: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/object_manager.cpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/priority.hpp:153:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 153 | auto_ptr m_Sub_I; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -26400,15 +26409,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_app_util.cpp -o blast_app_util.o -/bin/rm -f libblast_app_util.a .libblast_app_util.a.stamp -ar cr libblast_app_util.a blast_app_util.o -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libblast_app_util.a /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libblast_app_util.a /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libblast_app_util.a -/bin/ln -f .blast_app_util.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.blast_app_util.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/handle_range_map.cpp:44: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 771 | auto_ptr m_BaseTSE; @@ -26427,57 +26427,44 @@ 65 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:53: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_vector.cpp:38: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 771 | auto_ptr m_BaseTSE; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_vector.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/bioseq_handle.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:36: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/descr_mod_apply.cpp:66: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/descr_mod_apply.cpp:34: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_vector.cpp:38: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:53: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 771 | auto_ptr m_BaseTSE; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, @@ -26506,30 +26493,45 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/tse_split_info.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/feature_mod_apply.cpp:45: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_split_info.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/tse_split_info.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/feature_mod_apply.cpp:34: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/tse_split_info.cpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/message_listener.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/message_listener.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/message_listener.cpp:35: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/services/blast_services.cpp -o blast_services.o +/bin/rm -f libblast_services.so .libblast_services.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libblast_services.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC blast_services.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxnetblastcli -lxnetblast -lxser -lxconnect -lxutil -lxncbi -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libblast_services.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libblast_services.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libblast_services.so +/bin/ln -f .blast_services.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.blast_services.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seqdesc_ci.cpp:41: @@ -26562,7 +26564,22 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/tse_chunk_info.cpp:38: +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_app_util.cpp -o blast_app_util.o +/bin/rm -f libblast_app_util.a .libblast_app_util.a.stamp +ar cr libblast_app_util.a blast_app_util.o +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libblast_app_util.a /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libblast_app_util.a /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libblast_app_util.a +/bin/ln -f .blast_app_util.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.blast_app_util.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +tection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seqdesc_ci.cpp -o seqdesc_ci.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/tse_split_info.cpp -o tse_split_info.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/tse_chunk_info.cpp -o tse_chunk_info.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_ci.cpp -o bioseq_ci.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/annot_type_index.cpp -o annot_type_index.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_loc_mapper.cpp -o seq_loc_mapper.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/tse_split_info.cpp:37: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 771 | auto_ptr m_BaseTSE; | ^~~~~~~~ @@ -26572,56 +26589,21 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_chunk_info.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/tse_chunk_info.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_split_info.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/tse_split_info.cpp:36: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/tse_chunk_info.cpp:43: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/tse_split_info.cpp:39: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -tection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seqdesc_ci.cpp -o seqdesc_ci.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/tse_split_info.cpp -o tse_split_info.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/tse_chunk_info.cpp -o tse_chunk_info.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_ci.cpp -o bioseq_ci.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/annot_type_index.cpp -o annot_type_index.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_loc_mapper.cpp -o seq_loc_mapper.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_loc_mapper.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_loc_mapper.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_loc_mapper.cpp:34: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_ci.cpp:35: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/annot_collector.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -26631,8 +26613,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/bioseq_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_ci.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:36: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -26675,69 +26656,40 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_ci.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/priority.hpp:153:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 153 | auto_ptr m_Sub_I; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/annot_collector.cpp:43: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_loc_mapper.cpp:36: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/annot_collector.cpp:46: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/annot_type_index.cpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:53: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/tse_chunk_info.cpp:38: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 771 | auto_ptr m_BaseTSE; | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_align_mapper.cpp -o seq_align_mapper.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/annot_collector.cpp -o annot_collector.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/data_loader_factory.cpp -o data_loader_factory.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/mapped_feat.cpp -o mapped_feat.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_feat_handle.cpp -o seq_feat_handle.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_graph_handle.cpp -o seq_graph_handle.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -Itector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/feature_mod_apply.cpp -o feature_mod_apply.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/mod_to_enum.cpp -o mod_to_enum.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/message_listener.cpp -o message_listener.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/line_error.cpp -o line_error.o -/bin/rm -f libxobjread.so .libxobjread.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libxobjread.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC reader_message.o reader_listener.o reader_message_handler.o read_util.o format_guess_ex.o seqid_validate.o acc_pattern.o agp_read.o agp_seq_entry.o agp_util.o agp_validate_reader.o cigar.o fasta.o aln_formats.o alnread.o aln_errors.o aln_error_reporter.o aln_formatguess.o aln_util.o aln_reader.o aln_scanner.o aln_scanner_fastagap.o aln_scanner_clustal.o aln_scanner_nexus.o aln_scanner_phylip.o aln_scanner_sequin.o aln_scanner_multalign.o fasta_aln_builder.o fasta_reader_utils.o getfeature.o gff_reader.o track_data.o reader_data.o microarray_reader.o phrap.o reader_base.o readfeat.o rm_reader.o wiggle_reader.o gff3_reader.o gtf_reader.o gff3_location_merger.o gtf_location_merger.o gff_base_columns.o gff2_data.o gff2_reader.o gvf_reader.o vcf_reader.o psl_reader.o psl_data.o bed_reader.o bed_autosql.o bed_autosql_standard.o bed_autosql_custom.o bed_column_data.o best_feat_finder.o source_mod_parser.o fasta_exception.o agp_converter.o ucscregion_reader.o struct_cmt_reader.o mod_reader.o mod_error.o descr_mod_apply.o feature_mod_apply.o mod_to_enum.o message_listener.o line_error.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader_factory.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/data_loader_factory.cpp:34: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader_factory.hpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_chunk_info.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/tse_chunk_info.cpp:35: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/annot_collector.cpp:34: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_ci.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -26747,7 +26699,8 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/bioseq_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_ci.cpp:34: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -26763,65 +26716,43 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/seq_align_mapper.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_align_mapper.cpp:34: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/annot_type_index.cpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_id_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_id.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/seq_id_handle.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/seq_align_mapper.hpp:36: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader_factory.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/data_loader_factory.cpp:34: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader_factory.hpp:36: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/annot_collector.cpp:43: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_ci.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/priority.hpp:153:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 153 | auto_ptr m_Sub_I; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/annot_collector.cpp:46: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/tse_chunk_info.cpp:43: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_align_mapper.cpp: In member function 'virtual ncbi::objects::CSeq_align_Mapper_Base* ncbi::objects::CSeq_align_Mapper::CreateSubAlign(const ncbi::objects::CSpliced_seg&, const ncbi::objects::CSpliced_exon&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_align_mapper.cpp:466:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 466 | auto_ptr sub(new CSeq_align_Mapper(GetLocMapper())); - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -0+ds/c++/BUILD/lib -lsubmit -lseqset -lseq -lseqcode -lsequtil -lgeneral -lxutil -lxlogging -lpub -lxser -lxncbi -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libxobjread.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libxobjread.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libxobjread.so -/bin/ln -f .xobjread.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.xobjread.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/readers' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/annot_collector.cpp:53: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:103:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 103 | auto_ptr m_Indices; @@ -26835,7 +26766,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/readers' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:47, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/annot_collector.cpp:56: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/priority.hpp:153:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] @@ -26844,9 +26774,26 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:53: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/mapped_feat.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/mapped_feat.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/seq_align_mapper.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_align_mapper.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -26854,7 +26801,11 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/mapped_feat.hpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_id_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_id.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/seq_id_handle.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/seq_align_mapper.hpp:36: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -26870,8 +26821,22 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_feat_handle.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_align_mapper.cpp: In member function 'virtual ncbi::objects::CSeq_align_Mapper_Base* ncbi::objects::CSeq_align_Mapper::CreateSubAlign(const ncbi::objects::CSpliced_seg&, const ncbi::objects::CSpliced_exon&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_align_mapper.cpp:466:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 466 | auto_ptr sub(new CSeq_align_Mapper(GetLocMapper())); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_align_mapper.cpp -o seq_align_mapper.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/annot_collector.cpp -o annot_collector.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/data_loader_factory.cpp -o data_loader_factory.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/mapped_feat.cpp -o mapped_feat.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_feat_handle.cpp -o seq_feat_handle.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_graph_handle.cpp -o seq_graph_handle.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -IIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_loc_mapper.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -26879,9 +26844,8 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_loc_mapper.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_loc_mapper.cpp:34: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -26897,9 +26861,16 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_loc_mapper.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_graph_handle.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/mapped_feat.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/mapped_feat.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -26907,10 +26878,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_graph_handle.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_graph_handle.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/mapped_feat.hpp:36: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -26926,10 +26894,10 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/scope_transaction_impl.cpp:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/priority.hpp:153:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 153 | auto_ptr m_Sub_I; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_feat_handle.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, @@ -26937,57 +26905,25 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:43: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_transaction_impl.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/edit_commands_impl.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/edit_commands_impl.cpp:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/priority.hpp:153:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 153 | auto_ptr m_Sub_I; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/edit_commands_impl.hpp:35: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_feat_handle.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:103:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 103 | auto_ptr m_Indices; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:154:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 154 | auto_ptr m_Indices; - | ^~~~~~~~ + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:36: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_feat_handle.cpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/priority.hpp:153:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 153 | auto_ptr m_Sub_I; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_graph_handle.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/priority.hpp:153:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 153 | auto_ptr m_Sub_I; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_align_handle.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_graph_handle.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -26997,8 +26933,8 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_align_handle.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_align_handle.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_graph_handle.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_graph_handle.cpp:35: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -27014,26 +26950,31 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_align_handle.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/priority.hpp:153:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 153 | auto_ptr m_Sub_I; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_feat_handle.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:103:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 103 | auto_ptr m_Indices; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:53: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:154:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 154 | auto_ptr m_Indices; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_feat_handle.cpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/priority.hpp:153:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 153 | auto_ptr m_Sub_I; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_graph_handle.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/priority.hpp:153:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 153 | auto_ptr m_Sub_I; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -27074,42 +27015,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/seq_annot_edit_commands.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_graph_handle.cpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/edit_commands_impl.hpp:276:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 276 | auto_ptr m_Memeto; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/edit_commands_impl.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 322 | auto_ptr m_Memeto; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/edit_commands_impl.hpp:367:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 367 | auto_ptr m_Memeto; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/tse_assigner.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info_object.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/seq_entry_info.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:37: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:53: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] @@ -27127,7 +27032,7 @@ 65 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/seq_annot_edit_commands.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_align_handle.cpp:40: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_graph_handle.cpp:40: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/edit_commands_impl.hpp:276:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 276 | auto_ptr m_Memeto; | ^~~~~~~~ @@ -27154,7 +27059,7 @@ /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_edit_commands.cpp -o bioseq_edit_commands.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/repIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/scope_transaction.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_align_handle.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -27164,7 +27069,8 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:43: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_align_handle.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_align_handle.cpp:35: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -27180,7 +27086,43 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/tse_assigner.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info_object.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/seq_entry_info.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:37: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/scope_transaction_impl.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/priority.hpp:153:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 153 | auto_ptr m_Sub_I; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:43: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +tector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/feature_mod_apply.cpp -o feature_mod_apply.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/mod_to_enum.cpp -o mod_to_enum.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/message_listener.cpp -o message_listener.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/line_error.cpp -o line_error.o +/bin/rm -f libxobjread.so .libxobjread.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libxobjread.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC reader_message.o reader_listener.o reader_message_handler.o read_util.o format_guess_ex.o seqid_validate.o acc_pattern.o agp_read.o agp_seq_entry.o agp_util.o agp_validate_reader.o cigar.o fasta.o aln_formats.o alnread.o aln_errors.o aln_error_reporter.o aln_formatguess.o aln_util.o aln_reader.o aln_scanner.o aln_scanner_fastagap.o aln_scanner_clustal.o aln_scanner_nexus.o aln_scanner_phylip.o aln_scanner_sequin.o aln_scanner_multalign.o fasta_aln_builder.o fasta_reader_utils.o getfeature.o gff_reader.o track_data.o reader_data.o microarray_reader.o phrap.o reader_base.o readfeat.o rm_reader.o wiggle_reader.o gff3_reader.o gtf_reader.o gff3_location_merger.o gtf_location_merger.o gff_base_columns.o gff2_data.o gff2_reader.o gvf_reader.o vcf_reader.o psl_reader.o psl_data.o bed_reader.o bed_autosql.o bed_autosql_standard.o bed_autosql_custom.o bed_column_data.o best_feat_finder.o source_mod_parser.o fasta_exception.o agp_converter.o ucscregion_reader.o struct_cmt_reader.o mod_reader.o mod_error.o descr_mod_apply.o feature_mod_apply.o mod_to_enum.o message_listener.o line_error.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/tse_assigner.cpp:40: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] @@ -27190,8 +27132,7 @@ 65 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_transaction_impl.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/scope_transaction.cpp:38: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_align_handle.cpp:38: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/priority.hpp:153:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 153 | auto_ptr m_Sub_I; | ^~~~~~~~ @@ -27201,8 +27142,7 @@ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:47, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_transaction_impl.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/edit_commands_impl.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/bioseq_edit_commands.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_edit_commands.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/edit_commands_impl.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/priority.hpp:153:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 153 | auto_ptr m_Sub_I; | ^~~~~~~~ @@ -27210,30 +27150,43 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/bioseq_edit_commands.hpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/edit_commands_impl.hpp:35: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:53: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/scope_transaction.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:43: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:53: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_transaction_impl.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/scope_transaction.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/priority.hpp:153:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 153 | auto_ptr m_Sub_I; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -27254,14 +27207,8 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/seq_annot_edit_commands.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_align_handle.cpp:40: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/edit_commands_impl.hpp:276:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 276 | auto_ptr m_Memeto; | ^~~~~~~~ @@ -27280,10 +27227,35 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/scope_transaction_impl.cpp: In member function 'virtual void ncbi::objects::CScopeTransaction_Impl::Commit()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/scope_transaction_impl.cpp:167:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 167 | auto_ptr cmd(new CMultEditCommand); - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:53: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_transaction_impl.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/edit_commands_impl.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/bioseq_set_edit_commands.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_set_edit_commands.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/priority.hpp:153:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 153 | auto_ptr m_Sub_I; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/bioseq_set_edit_commands.hpp:35: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -27307,11 +27279,17 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +0+ds/c++/BUILD/lib -lsubmit -lseqset -lseq -lseqcode -lsequtil -lgeneral -lxutil -lxlogging -lpub -lxser -lxncbi -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libxobjread.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libxobjread.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libxobjread.so +/bin/ln -f .xobjread.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.xobjread.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/readers' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/readers' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:47, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_transaction_impl.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/edit_commands_impl.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/bioseq_set_edit_commands.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_set_edit_commands.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/bioseq_edit_commands.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_edit_commands.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/priority.hpp:153:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 153 | auto_ptr m_Sub_I; | ^~~~~~~~ @@ -27319,7 +27297,21 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/bioseq_set_edit_commands.hpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/bioseq_edit_commands.hpp:35: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +roducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_entry_edit_commands.cpp -o seq_entry_edit_commands.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_set_edit_commands.cpp -o bioseq_set_edit_commands.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/edit_saver.cpp -o edit_saver.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/unsupp_editsaver.cpp -o unsupp_editsaver.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/edits_db_engine.cpp -o edits_db_engine.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/edits_db_saver.cpp -o edits_db_saver.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/annot_finder.cpp -o annoIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:53: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -27339,6 +27331,14 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/edit_commands_impl.hpp:276:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 276 | auto_ptr m_Memeto; | ^~~~~~~~ @@ -27357,13 +27357,14 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -roducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_entry_edit_commands.cpp -o seq_entry_edit_commands.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_set_edit_commands.cpp -o bioseq_set_edit_commands.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/edit_saver.cpp -o edit_saver.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/unsupp_editsaver.cpp -o unsupp_editsaver.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/edits_db_engine.cpp -o edits_db_engine.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/edits_db_saver.cpp -o edits_db_saver.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/annot_finder.cpp -o annoIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/scope_transaction_impl.cpp: In member function 'virtual void ncbi::objects::CScopeTransaction_Impl::Commit()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/scope_transaction_impl.cpp:167:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 167 | auto_ptr cmd(new CMultEditCommand); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:53: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 771 | auto_ptr m_BaseTSE; @@ -27419,6 +27420,40 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:53: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/edit_commands_impl.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 322 | auto_ptr m_Memeto; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/edit_commands_impl.hpp:367:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 367 | auto_ptr m_Memeto; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/edit_commands_impl.hpp:276:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 276 | auto_ptr m_Memeto; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/edit_commands_impl.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 322 | auto_ptr m_Memeto; | ^~~~~~~~ @@ -27504,21 +27539,18 @@ cd objmgr/split/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=id2_split UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/util' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/dustmask' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/util' make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/segmask' make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/split' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/util' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/util' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/dustmask' @@ -27527,73 +27559,76 @@ make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/split' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/segmask' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/dustmask' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/util' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/segmask' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/split' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/segmask' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/dustmask' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/segmask' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/split' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/segmask' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/util' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/dustmask' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/dustmask' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/segmask' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/util' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/dustmask' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/split' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util TMPL=util -w -j12 --jobserver-auth=7,8 all -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader TMPL=seqdb -w -j12 --jobserver-auth=7,8 all -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/dustmask TMPL=xalgodustmask -w -j12 --jobserver-auth=7,8 all +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank TMPL=ncbi_xreader -w -j12 --jobserver-auth=7,8 all /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/segmask TMPL=xalgosegmask -w -j12 --jobserver-auth=7,8 all +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util TMPL=util -w -j12 --jobserver-auth=7,8 all /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/split TMPL=id2_split -w -j12 --jobserver-auth=7,8 all +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader TMPL=seqdb -w -j12 --jobserver-auth=7,8 all +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/dustmask TMPL=xalgodustmask -w -j12 --jobserver-auth=7,8 all make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/util' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/weight.cpp -o weight.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp -o sequence.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/feature.cpp -o feature.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/indexer.cpp -o indexer.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/seqtitle.cpp -o seqtitle.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/create_defline.cpp -o create_defline.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-formmake[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/dispatcher.cpp -o dispatcher.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/reader.cpp -o reader.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/writer.cpp -o writer.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/processors.cpp -o processors.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/wgsmaster.cpp -o wgsmaster.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blasmake[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdb.cpp -o seqdb.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbbitset.cpp -o seqdbbitset.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbfilter.cpp -o seqdbfilter.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbatlas.cpp -o seqdbatlas.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbalias.cpp -o seqdbalias.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproduct+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/reader_snp.cpp -o reader_snp.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/reader_snp.cpp -o reader_snp.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/seqref.cpp -o seqref.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/blob_id.cpp -o blob_id.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/request_result.cpp -o request_result.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/reader_id1_base.cpp -o reader_id1_base.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/reader_id2_base.cpp -o reader_id2_base.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/split' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/split' /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/split/blob_splitter.cpp -o blob_splitter.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/split/blob_splitter_params.cpp -o blob_splitter_params.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/split/split_blob.cpp -o split_blob.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/split/blob_splitter_impl.cpp -o blob_splitter_impl.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/split/blob_splitter_parser.cpp -o blob_splitter_parser.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2ible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbcommon.cpp -o seqdbcommon.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdb.cpp -o seqdb.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbbitset.cpp -o seqdbbitset.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbfilter.cpp -o seqdbfilter.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbatlas.cpp -o seqdbatlas.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbalias.cpp -o seqdbalias.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducmake[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/util' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/weight.cpp -o weight.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp -o sequence.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/feature.cpp -o feature.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/indexer.cpp -o indexer.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/seqtitle.cpp -o seqtitle.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/create_defline.cpp -o create_defline.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-formible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbcommon.cpp -o seqdbcommon.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbfile.cpp -o seqdbfile.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbimpl.cpp -o seqdbimpl.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbvol.cpp -o seqdbvol.o @@ -27622,27 +27657,41 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/mapped_feat.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/create_defline.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/iterator.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/util/strsearch.hpp:45, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbatlas.cpp: In static member function 'static char* ncbi::CSeqDBAtlas::Alloc(size_t, bool)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbatlas.cpp:269:16: warning: catching polymorphic type 'class std::bad_alloc' by value [-Wcatch-value=] - 269 | catch(std::bad_alloc) { - | ^~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader_snp.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/reader_snp.cpp:33: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:103:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 103 | auto_ptr m_Indices; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/request_result.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/reader_id1_base.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/reader_id1_base.cpp:32: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, @@ -27653,22 +27702,44 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_param.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/reader_snp.cpp:32: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/reader_id1_base.cpp:31: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:154:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 154 | auto_ptr m_Indices; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp:37: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/feature.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/objistr.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/feature.cpp:33: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/seq_trimmer.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -27684,10 +27755,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbatlas.cpp: At global scope: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbatlas.cpp:88:13: warning: 'void ncbi::s_SeqDB_FileNotFound(const std::string&)' defined but not used [-Wunused-function] - 88 | static void s_SeqDB_FileNotFound(const string & fname) - | ^~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, @@ -27717,43 +27784,149 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader_snp.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/processor.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/dispatcher.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/reader_id1_base.cpp:33: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:103:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 103 | auto_ptr m_Indices; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:154:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 154 | auto_ptr m_Indices; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbcommon.cpp: In function 'void ncbi::SeqDB_ReadMemoryTaxIdList(const char*, const char*, CSeqDBGiList::STaxIdsOids&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbcommon.cpp:1094:52: warning: comparison of integer expressions of different signedness: 'Int4' {aka 'int'} and 'unsigned int' [-Wsign-compare] + 1094 | if (((bendp - bbeginp) < 2) || (bbeginp[0] != 0xFFFFFFFF) + | ~~~~~~~~~~~^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbatlas.cpp: In static member function 'static char* ncbi::CSeqDBAtlas::Alloc(size_t, bool)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbatlas.cpp:269:16: warning: catching polymorphic type 'class std::bad_alloc' by value [-Wcatch-value=] + 269 | catch(std::bad_alloc) { + | ^~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/split/blob_splitter_impl.cpp:47: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/seq_loc_util.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/seq_loc_util.cpp:50: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/seq_loc_util.cpp:33: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/request_result.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/reader.cpp:31: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/split/blob_splitter_impl.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/split/blob_splitter_impl.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader.hpp:32: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/feature.cpp:38: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:39: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader_snp.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/reader_snp.cpp:33: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:103:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 103 | auto_ptr m_Indices; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/objistr.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/feature.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_param.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/reader_snp.cpp:32: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:154:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 154 | auto_ptr m_Indices; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/request_result.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/dispatcher.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/dispatcher.cpp:31: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/dispatcher.hpp:34: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -27782,7 +27955,7 @@ | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/seqtitle.cpp:62: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/split/blob_splitter_parser.cpp:69: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -27790,42 +27963,40 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/iterator.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/seqtitle.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/split/blob_splitter_impl.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/split/blob_splitter_parser.cpp:35: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:39: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/split/blob_splitter_impl.cpp:48: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbatlas.cpp: At global scope: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbatlas.cpp:88:13: warning: 'void ncbi::s_SeqDB_FileNotFound(const std::string&)' defined but not used [-Wunused-function] + 88 | static void s_SeqDB_FileNotFound(const string & fname) + | ^~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader_snp.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/processor.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/processors.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/dispatcher.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/reader.cpp:33: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:103:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 103 | auto_ptr m_Indices; | ^~~~~~~~ @@ -27838,90 +28009,72 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp:89: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp: In function 'ncbi::CRef ncbi::objects::sequence::SourceToProduct(const ncbi::objects::CSeq_feat&, const ncbi::objects::CSeq_loc&, TS2PFlags, ncbi::objects::CScope*, int*)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp:703:18: warning: catching polymorphic type 'class ncbi::objects::CObjmgrUtilException' by value [-Wcatch-value=] - 703 | } catch (CObjmgrUtilException) { - | ^~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp: In function 'ncbi::CRef ncbi::objects::sequence::ProductToSource(const ncbi::objects::CSeq_feat&, const ncbi::objects::CSeq_loc&, TP2SFlags, ncbi::objects::CScope*)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp:746:18: warning: catching polymorphic type 'class ncbi::objects::CObjmgrUtilException' by value [-Wcatch-value=] - 746 | } catch (CObjmgrUtilException) { - | ^~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp:751:18: warning: catching polymorphic type 'class ncbi::objects::CObjmgrUtilException' by value [-Wcatch-value=] - 751 | } catch (CObjmgrUtilException) { - | ^~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp: In function 'void ncbi::objects::sequence::GetOverlappingFeatures(const ncbi::objects::CSeq_loc&, ncbi::objects::CSeqFeatData_Base::E_Choice, ncbi::objects::CSeqFeatData::ESubtype, EOverlapType, TFeatScores&, ncbi::objects::CScope&, TBestFeatOpts, CGetOverlappingFeaturesPlugin*)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp:969:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 969 | auto_ptr feat_it_ptr; +at-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/obj_sniff.cpp -o obj_sniff.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/seq_loc_util.cpp -o seq_loc_util.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/seq_align_util.cpp -o seq_align_util.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/seq_trimmer.cpp -o seq_trimmer.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/bioseqgaps_ci.cpp -o bioseqgaps_ci.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/objutil.cpp -o objutil.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share//build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/seq_trimmer.cpp: In function 'ncbi::objects::CSequenceAmbigTrimmer::TTrimRuleVec* ncbi::objects::{anonymous}::s_DefaultRuleCreator()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/seq_trimmer.cpp:142:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 142 | auto_ptr pTrimRuleVec( new CSequenceAmbigTrimmer::TTrimRuleVec ); | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/split/blob_splitter_maker.cpp:59: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/split/blob_splitter_impl.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/split/blob_splitter_maker.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/iterator.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp:33: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader_snp.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/processor.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/processors.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:103:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 103 | auto_ptr m_Indices; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp: At global scope: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp:1682:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1682 | auto_ptr &feat_ci, - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:154:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 154 | auto_ptr m_Indices; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp: In function 'ncbi::CConstRef ncbi::objects::sequence::GetBestCdsForMrna(const ncbi::objects::CSeq_feat&, ncbi::objects::CScope&, TBestFeatOpts, CGetOverlappingFeaturesPlugin*)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp:1771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1771 | auto_ptr cds_plugin( +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/seq_loc_util.cpp:51: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/dustmask/symdust.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/feature.cpp:39: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -27937,51 +28090,30 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/objutil.cpp:51: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/objutil.cpp:33: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbcommon.cpp: In function 'void ncbi::SeqDB_ReadMemoryTaxIdList(const char*, const char*, CSeqDBGiList::STaxIdsOids&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbcommon.cpp:1094:52: warning: comparison of integer expressions of different signedness: 'Int4' {aka 'int'} and 'unsigned int' [-Wsign-compare] - 1094 | if (((bendp - bbeginp) < 2) || (bbeginp[0] != 0xFFFFFFFF) - | ~~~~~~~~~~~^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/seq_align_util.cpp:41: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/dustmask/symdust.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_id_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_id.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/seq_align_util.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -27997,94 +28129,58 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/mapped_feat.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/create_defline.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/util/strsearch.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:37: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/seq_loc_util.cpp: In function 'bool ncbi::objects::sequence::BadSeqLocSortOrder(const ncbi::objects::CBioseq_Handle&, const ncbi::objects::CSeq_loc&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/seq_loc_util.cpp:612:14: warning: catching polymorphic type 'class ncbi::CException' by value [-Wcatch-value=] + 612 | } catch (CException) { + | ^~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/reader_snp.cpp:55: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/feature.cpp:86: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/request_result.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/writer.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/writer.cpp:31: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/writer.hpp:34: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp: In member function 'ncbi::CRef ncbi::objects::SRelLoc::Resolve(const ncbi::objects::CSeq_loc&, ncbi::objects::CScope*, TFlags) const': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp:4617:22: warning: catching polymorphic type 'class ncbi::objects::CObjmgrUtilException' by value [-Wcatch-value=] - 4617 | } catch (CObjmgrUtilException) { - | ^~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader_snp.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/processor.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/dispatcher.hpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:103:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 103 | auto_ptr m_Indices; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/seq_loc_util.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/seq_loc_util.cpp:50: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:154:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 154 | auto_ptr m_Indices; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/seq_loc_util.cpp:33: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/processors.cpp: In static member function 'static ncbi::CObjectIStream* ncbi::objects::CProcessor_ID2::x_OpenDataStream(const ncbi::objects::CID2_Reply_Data&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/processors.cpp:1791:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1791 | auto_ptr reader(new COSSReader(data.GetData())); | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/processors.cpp:1792:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1792 | auto_ptr stream; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/request_result.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/reader_id2_base.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/reader_service.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/request_result.cpp:33: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 771 | auto_ptr m_BaseTSE; | ^~~~~~~~ @@ -28094,65 +28190,35 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_param.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/reader_service.cpp:31: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/request_result.hpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/request_result.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/dispatcher.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/dispatcher.cpp:31: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/dispatcher.hpp:34: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/request_result.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/request_result.cpp:33: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/processors.cpp:1815:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1815 | auto_ptr in; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/request_result.hpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:159:14: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 159 | std::auto_ptr< TMaskList > operator()( const sequence_type & seq ); - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/processors.cpp: In static member function 'static void ncbi::objects::CProcessor_ID2::x_ReadData(const ncbi::objects::CID2_Reply_Data&, const ncbi::CObjectInfo&, size_t&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/processors.cpp:1825:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1825 | auto_ptr in(x_OpenDataStream(data)); + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:168:14: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 168 | std::auto_ptr< TMaskList > operator()( const sequence_type & seq, - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/processors.cpp: In static member function 'static void ncbi::objects::CProcessor_ID2::DumpDataAsText(const ncbi::objects::CID2_Reply_Data&, ncbi::CNcbiOstream&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/processors.cpp:1860:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1860 | auto_ptr in(x_OpenDataStream(data)); + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/seqtitle.cpp:67: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/processors.cpp:1861:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1861 | auto_ptr out(CObjectOStream::Open(eSerial_AsnText, | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -28163,22 +28229,34 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:159:14: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 159 | std::auto_ptr< TMaskList > operator()( const sequence_type & seq ); + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:168:14: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 168 | std::auto_ptr< TMaskList > operator()( const sequence_type & seq, + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/weight.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/request_result.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/reader.cpp:31: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/writer.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/writer.cpp:31: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 771 | auto_ptr m_BaseTSE; | ^~~~~~~~ @@ -28188,28 +28266,19 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader.hpp:32: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/writer.hpp:34: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/weight.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/dustmask/symdust.cpp:214:6: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 214 | std::auto_ptr< CSymDustMasker::TMaskList > | ^~~~~~~~ @@ -28223,15 +28292,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -28256,25 +28316,18 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/seq_trimmer.cpp:35: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/seqtitle.cpp:62: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/objutil.cpp:54: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/iterator.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/seqtitle.cpp:34: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -28290,22 +28343,45 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/segmask' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/segmask/segmask.cpp -o segmask.o +/bin/rm -f libxalgosegmask.so .libxalgosegmask.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libxalgosegmask.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC segmask.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast -lxobjmgr -lxncbi -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libxalgosegmask.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libxalgosegmask.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libxalgosegmask.so +/bin/ln -f .xalgosegmask.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.xalgosegmask.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/segmask' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/segmask' +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/objutil.cpp:51: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/objutil.cpp:33: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/reader_snp.cpp:55: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/create_defline.cpp:54: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -28318,63 +28394,86 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/processors.cpp: In static member function 'static ncbi::CObjectIStream* ncbi::objects::CProcessor_ID2::x_OpenDataStream(const ncbi::objects::CID2_Reply_Data&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/processors.cpp:1791:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1791 | auto_ptr reader(new COSSReader(data.GetData())); +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/wgsmaster.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/wgsmaster.cpp:32: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info_object.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/seq_entry_info.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/processors.cpp:1792:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1792 | auto_ptr stream; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/request_result.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/reader_id2_base.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/reader_id2_base.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_param.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/reader_id2_base.cpp:32: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/processors.cpp:1815:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1815 | auto_ptr in; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/seq_align_util.cpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader_snp.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/processor.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/writer.cpp:32: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:103:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 103 | auto_ptr m_Indices; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_id_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_id.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/seq_align_util.cpp:33: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/processors.cpp: In static member function 'static void ncbi::objects::CProcessor_ID2::x_ReadData(const ncbi::objects::CID2_Reply_Data&, const ncbi::CObjectInfo&, size_t&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/processors.cpp:1825:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1825 | auto_ptr in(x_OpenDataStream(data)); - | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/processors.cpp: In static member function 'static void ncbi::objects::CProcessor_ID2::DumpDataAsText(const ncbi::objects::CID2_Reply_Data&, ncbi::CNcbiOstream&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/processors.cpp:1860:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1860 | auto_ptr in(x_OpenDataStream(data)); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:154:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 154 | auto_ptr m_Indices; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/processors.cpp:1861:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1861 | auto_ptr out(CObjectOStream::Open(eSerial_AsnText, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/request_result.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/reader_id1_base.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/reader_id1_base.cpp:32: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_param.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/reader_id1_base.cpp:31: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -28394,29 +28493,18 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/wgsmaster.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/wgsmaster.cpp:32: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/bioseqgaps_ci.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info_object.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/seq_entry_info.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:37: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/feature.cpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -28432,25 +28520,10 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp: In instantiation of 'void ncbi::objects::x_Translate(const Container&, std::string&, int, const CGenetic_code*, bool, bool, bool, bool, bool*) [with Container = std::__cxx11::basic_string; std::string = std::__cxx11::basic_string]': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp:3957:16: required from here -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp:3501:43: warning: comparison of integer expressions of different signedness: 'std::__cxx11::basic_string::size_type' {aka 'long unsigned int'} and 'int' [-Wsign-compare] - 3501 | const size_t usable_size = seq.size() > frame ? seq.size() - frame : 0; - | ~~~~~~~~~~~^~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp: In instantiation of 'void ncbi::objects::x_Translate(const Container&, std::string&, int, const CGenetic_code*, bool, bool, bool, bool, bool*) [with Container = CSeqVector; std::string = std::__cxx11::basic_string]': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp:3985:16: required from here -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp:3501:43: warning: comparison of integer expressions of different signedness: 'ncbi::TSeqPos' {aka 'unsigned int'} and 'int' [-Wsign-compare] -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader_snp.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/processor.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/writer.cpp:32: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:103:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 103 | auto_ptr m_Indices; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:154:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 154 | auto_ptr m_Indices; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/wgsmaster.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -28464,8 +28537,7 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/wgsmaster.cpp:35: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/objutil.cpp:54: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ @@ -28476,7 +28548,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/request_result.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/reader_id2_base.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/reader_id2_base.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/reader_service.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 771 | auto_ptr m_BaseTSE; | ^~~~~~~~ @@ -28489,54 +28561,16 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_param.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/reader_id2_base.cpp:32: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader_snp.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/processor.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/dispatcher.hpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:103:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 103 | auto_ptr m_Indices; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:154:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 154 | auto_ptr m_Indices; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/reader_service.cpp:31: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/bioseqgaps_ci.cpp:35: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp:37: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -28552,34 +28586,9 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader_snp.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/processor.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/dispatcher.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/reader.cpp:33: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:103:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 103 | auto_ptr m_Indices; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:154:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 154 | auto_ptr m_Indices; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/segmask' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/segmask/segmask.cpp -o segmask.o -/bin/rm -f libxalgosegmask.so .libxalgosegmask.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libxalgosegmask.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC segmask.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast -lxobjmgr -lxncbi -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libxalgosegmask.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libxalgosegmask.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libxalgosegmask.so -/bin/ln -f .xalgosegmask.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.xalgosegmask.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/segmask' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/segmask' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/split/blob_splitter_parser.cpp:69: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/split/blob_splitter_impl.cpp:47: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -28588,7 +28597,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/split/blob_splitter_impl.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/split/blob_splitter_parser.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/split/blob_splitter_impl.cpp:35: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -28604,7 +28613,22 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/objutil.cpp:55: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/weight.cpp:55: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 364 | auto_ptr &feat_ci, | ^~~~~~~~ @@ -28617,6 +28641,17 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbvol.cpp: In member function 'int ncbi::CSeqDBVol::GetAmbigPartialSeq(int, char**, int, ncbi::ESeqDBAllocType, ncbi::CSeqDB::TSequenceRanges*, ncbi::CSeqDB::TSequenceRanges*) const': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbvol.cpp:1540:50: warning: comparison of integer expressions of different signedness: 'ncbi::TSeqPos' {aka 'unsigned int'} and 'int' [-Wsign-compare] + 1540 | if ((*partial_ranges)[num_ranges - 1].second > base_length) { +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbvol.cpp: In member function 'int ncbi::CSeqDBVol::x_GetSequence(int, const char**) const': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbvol.cpp:1778:24: warning: comparing the result of pointer addition '((* buffer) + -1)' and NULL [-Waddress] + 1778 | if (! (*buffer - 1)) return -1; + | ~~~~~~~~~^~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/weight.cpp: In function 'void ncbi::objects::GetProteinWeights(const CBioseq_Handle&, TWeights&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/weight.cpp:363:18: warning: catching polymorphic type 'class ncbi::objects::CObjmgrUtilException' by value [-Wcatch-value=] + 363 | } catch (CObjmgrUtilException) { + | ^~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader_snp.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/processor.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/dispatcher.hpp:38, @@ -28633,16 +28668,31 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbvol.cpp: In member function 'void ncbi::CSeqDBVol::GetRawSeqAndAmbig(int, const char**, int*, int*) const': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbvol.cpp:2969:11: warning: variable 'map_end' set but not used [-Wunused-but-set-variable] + 2969 | TIndx map_end = 0; + | ^~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/split/blob_splitter_impl.cpp:48: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/seq_loc_util.cpp:51: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/seqtitle.cpp:67: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/create_defline.cpp: In member function 'void ncbi::objects::sequence::CDeflineGenerator::x_SetTitleFromProteinIdx(const ncbi::objects::CBioseq_Handle&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/create_defline.cpp:2146:38: warning: comparison of integer expressions of different signedness: 'int' and 'std::__cxx11::basic_string::size_type' {aka 'long unsigned int'} [-Wsign-compare] + 2146 | if (offset > 0 && offset < m_MainTitle.length()) { + | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: @@ -28652,95 +28702,92 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/create_defline.cpp: In member function 'void ncbi::objects::sequence::CDeflineGenerator::x_SetTitleFromProtein(const ncbi::objects::CBioseq_Handle&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/create_defline.cpp:2350:38: warning: comparison of integer expressions of different signedness: 'int' and 'std::__cxx11::basic_string::size_type' {aka 'long unsigned int'} [-Wsign-compare] + 2350 | if (offset > 0 && offset < m_MainTitle.length()) { + | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/create_defline.cpp: In function 'size_t s_TitleEndsInOrganism(std::string&, ncbi::CTempString)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/create_defline.cpp:2986:17: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long unsigned int'} and 'int' [-Wsign-compare] + 2986 | if (pos == idx + 2) { + | ~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/split/blob_splitter_maker.cpp:59: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/split/blob_splitter_impl.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/split/blob_splitter_maker.cpp:35: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/weight.cpp:55: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/create_defline.cpp: In member function 'std::string ncbi::objects::sequence::CDeflineGenerator::GenerateDefline(const ncbi::objects::CBioseq_Handle&, TUserFlags)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/create_defline.cpp:3966:23: warning: comparison of integer expressions of different signedness: 'int' and 'long unsigned int' [-Wsign-compare] + 3966 | for (int i = 0; i < sizeof (s_tpaPrefixList) / sizeof (const char*); i++) { + | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 364 | auto_ptr &feat_ci, | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/seq_align_util.cpp:42: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 869 | auto_ptr m_Gen; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/objutil.cpp:55: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -at-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/obj_sniff.cpp -o obj_sniff.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/seq_loc_util.cpp -o seq_loc_util.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/seq_align_util.cpp -o seq_align_util.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/seq_trimmer.cpp -o seq_trimmer.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/bioseqgaps_ci.cpp -o bioseqgaps_ci.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/objutil.cpp -o objutil.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader_snp.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/processor.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/dispatcher.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/reader_id1_base.cpp:33: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:103:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 103 | auto_ptr m_Indices; - | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:154:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 154 | auto_ptr m_Indices; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/weight.cpp: In function 'void ncbi::objects::GetProteinWeights(const CBioseq_Handle&, TWeights&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/weight.cpp:363:18: warning: catching polymorphic type 'class ncbi::objects::CObjmgrUtilException' by value [-Wcatch-value=] - 363 | } catch (CObjmgrUtilException) { - | ^~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/seq_align_util.cpp:42: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbvol.cpp: In member function 'int ncbi::CSeqDBVol::GetAmbigPartialSeq(int, char**, int, ncbi::ESeqDBAllocType, ncbi::CSeqDB::TSequenceRanges*, ncbi::CSeqDB::TSequenceRanges*) const': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbvol.cpp:1540:50: warning: comparison of integer expressions of different signedness: 'ncbi::TSeqPos' {aka 'unsigned int'} and 'int' [-Wsign-compare] - 1540 | if ((*partial_ranges)[num_ranges - 1].second > base_length) { -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbvol.cpp: In member function 'int ncbi::CSeqDBVol::x_GetSequence(int, const char**) const': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbvol.cpp:1778:24: warning: comparing the result of pointer addition '((* buffer) + -1)' and NULL [-Waddress] - 1778 | if (! (*buffer - 1)) return -1; - | ~~~~~~~~~^~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 364 | auto_ptr &feat_ci, | ^~~~~~~~ @@ -28753,27 +28800,11 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbvol.cpp: In member function 'void ncbi::CSeqDBVol::GetRawSeqAndAmbig(int, const char**, int*, int*) const': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbvol.cpp:2969:11: warning: variable 'map_end' set but not used [-Wunused-but-set-variable] - 2969 | TIndx map_end = 0; - | ^~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/objutil.cpp: In instantiation of 'bool ncbi::objects::{anonymous}::s_IsTagStart(const _T&, const _T&) [with _T = const char*]': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/objutil.cpp:1824:61: required from here /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/objutil.cpp:1752:57: warning: comparison of integer expressions of different signedness: 'int' and 'const size_t' {aka 'const long unsigned int'} [-Wsign-compare] 1752 | for (int possible_str_idx = 0; possible_str_idx < num_possible_tag_starts; ++possible_str_idx) { | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/indexer.cpp:38: @@ -28792,10 +28823,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/seq_loc_util.cpp: In function 'bool ncbi::objects::sequence::BadSeqLocSortOrder(const ncbi::objects::CBioseq_Handle&, const ncbi::objects::CSeq_loc&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/seq_loc_util.cpp:612:14: warning: catching polymorphic type 'class ncbi::CException' by value [-Wcatch-value=] - 612 | } catch (CException) { - | ^~~~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -28805,19 +28832,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/feature.cpp:86: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/request_result.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/info_cache.cpp:35: @@ -28842,34 +28856,7 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/indexer.cpp:43: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/objutil.cpp:1114:13: warning: 'bool ncbi::objects::s_IsValidAccession(const std::string&)' defined but not used [-Wunused-function] - 1114 | static bool s_IsValidAccession(const string& acc) - | ^~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/create_defline.cpp:54: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/dustmask' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/dustmask/symdust.cpp -o symdust.o -/bin/rm -f libxalgodustmask.so .libxalgodustmask.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libxalgodustmask.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC symdust.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxobjmgr -lseq -lxncbi -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libxalgodustmask.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libxalgodustmask.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libxalgodustmask.so -/bin/ln -f .xalgodustmask.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.xalgodustmask.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/dustmask' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/dustmask' -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/indexer.cpp:44: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp:89: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 364 | auto_ptr &feat_ci, | ^~~~~~~~ @@ -28882,50 +28869,50 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/seq_trimmer.cpp: In function 'ncbi::objects::CSequenceAmbigTrimmer::TTrimRuleVec* ncbi::objects::{anonymous}::s_DefaultRuleCreator()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/seq_trimmer.cpp:142:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 142 | auto_ptr pTrimRuleVec( new CSequenceAmbigTrimmer::TTrimRuleVec ); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp: In function 'ncbi::CRef ncbi::objects::sequence::SourceToProduct(const ncbi::objects::CSeq_feat&, const ncbi::objects::CSeq_loc&, TS2PFlags, ncbi::objects::CScope*, int*)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp:703:18: warning: catching polymorphic type 'class ncbi::objects::CObjmgrUtilException' by value [-Wcatch-value=] + 703 | } catch (CObjmgrUtilException) { + | ^~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp: In function 'ncbi::CRef ncbi::objects::sequence::ProductToSource(const ncbi::objects::CSeq_feat&, const ncbi::objects::CSeq_loc&, TP2SFlags, ncbi::objects::CScope*)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp:746:18: warning: catching polymorphic type 'class ncbi::objects::CObjmgrUtilException' by value [-Wcatch-value=] + 746 | } catch (CObjmgrUtilException) { + | ^~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp:751:18: warning: catching polymorphic type 'class ncbi::objects::CObjmgrUtilException' by value [-Wcatch-value=] + 751 | } catch (CObjmgrUtilException) { + | ^~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp: In function 'void ncbi::objects::sequence::GetOverlappingFeatures(const ncbi::objects::CSeq_loc&, ncbi::objects::CSeqFeatData_Base::E_Choice, ncbi::objects::CSeqFeatData::ESubtype, EOverlapType, TFeatScores&, ncbi::objects::CScope&, TBestFeatOpts, CGetOverlappingFeaturesPlugin*)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp:969:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 969 | auto_ptr feat_it_ptr; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp: At global scope: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp:1682:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1682 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp: In function 'ncbi::CConstRef ncbi::objects::sequence::GetBestCdsForMrna(const ncbi::objects::CSeq_feat&, ncbi::objects::CScope&, TBestFeatOpts, CGetOverlappingFeaturesPlugin*)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp:1771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1771 | auto_ptr cds_plugin( | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/indexer.cpp: In function 'int ncbi::objects::SkipMixedContent(const char*)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/indexer.cpp:3599:23: warning: comparison of integer expressions of different signedness: 'int' and 'long unsigned int' [-Wsign-compare] - 3599 | for (int i = 0; i < sizeof (mixedTags); i++) { - | ~~^~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/indexer.cpp: In member function 'void ncbi::objects::CWordPairIndexer::PopulateWordPairIndex(std::string)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/indexer.cpp:3676:23: warning: comparison of integer expressions of different signedness: 'int' and 'std::__cxx11::basic_string::size_type' {aka 'long unsigned int'} [-Wsign-compare] - 3676 | for (int i = 0; i < str.length(); i++) { - | ~~^~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/create_defline.cpp: In member function 'void ncbi::objects::sequence::CDeflineGenerator::x_SetTitleFromProteinIdx(const ncbi::objects::CBioseq_Handle&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/create_defline.cpp:2146:38: warning: comparison of integer expressions of different signedness: 'int' and 'std::__cxx11::basic_string::size_type' {aka 'long unsigned int'} [-Wsign-compare] - 2146 | if (offset > 0 && offset < m_MainTitle.length()) { - | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/create_defline.cpp: In member function 'void ncbi::objects::sequence::CDeflineGenerator::x_SetTitleFromProtein(const ncbi::objects::CBioseq_Handle&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/create_defline.cpp:2350:38: warning: comparison of integer expressions of different signedness: 'int' and 'std::__cxx11::basic_string::size_type' {aka 'long unsigned int'} [-Wsign-compare] - 2350 | if (offset > 0 && offset < m_MainTitle.length()) { - | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/create_defline.cpp: In function 'size_t s_TitleEndsInOrganism(std::string&, ncbi::CTempString)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/create_defline.cpp:2986:17: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long unsigned int'} and 'int' [-Wsign-compare] - 2986 | if (pos == idx + 2) { - | ~~~~^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/create_defline.cpp: In member function 'std::string ncbi::objects::sequence::CDeflineGenerator::GenerateDefline(const ncbi::objects::CBioseq_Handle&, TUserFlags)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/create_defline.cpp:3966:23: warning: comparison of integer expressions of different signedness: 'int' and 'long unsigned int' [-Wsign-compare] - 3966 | for (int i = 0; i < sizeof (s_tpaPrefixList) / sizeof (const char*); i++) { - | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbisam.cpp -o seqdbisam.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbtax.cpp -o seqdbtax.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbgilistset.cpp -o seqdbgilistset.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbexpert.cpp -o seqdbexpert.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbblob.cpp -o seqdbblob.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbcol.cpp -o seqdbcol.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=foIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/objutil.cpp:1114:13: warning: 'bool ncbi::objects::s_IsValidAccession(const std::string&)' defined but not used [-Wunused-function] + 1114 | static bool s_IsValidAccession(const string& acc) + | ^~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/indexer.cpp:43: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/mapped_feat.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/feature_edit.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] @@ -28939,6 +28926,14 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/dustmask' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/dustmask/symdust.cpp -o symdust.o +/bin/rm -f libxalgodustmask.so .libxalgodustmask.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libxalgodustmask.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC symdust.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxobjmgr -lseq -lxncbi -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libxalgodustmask.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libxalgodustmask.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libxalgodustmask.so +/bin/ln -f .xalgodustmask.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.xalgodustmask.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/dustmask' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ @@ -28951,10 +28946,50 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/dustmask' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp: In member function 'ncbi::CRef ncbi::objects::SRelLoc::Resolve(const ncbi::objects::CSeq_loc&, ncbi::objects::CScope*, TFlags) const': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp:4617:22: warning: catching polymorphic type 'class ncbi::objects::CObjmgrUtilException' by value [-Wcatch-value=] + 4617 | } catch (CObjmgrUtilException) { + | ^~~~~~~~~~~~~~~~~~~~ +=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbisam.cpp -o seqdbisam.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbtax.cpp -o seqdbtax.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbgilistset.cpp -o seqdbgilistset.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbexpert.cpp -o seqdbexpert.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbblob.cpp -o seqdbblob.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbcol.cpp -o seqdbcol.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=fo/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp: In instantiation of 'void ncbi::objects::x_Translate(const Container&, std::string&, int, const CGenetic_code*, bool, bool, bool, bool, bool*) [with Container = std::__cxx11::basic_string; std::string = std::__cxx11::basic_string]': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp:3957:16: required from here +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp:3501:43: warning: comparison of integer expressions of different signedness: 'std::__cxx11::basic_string::size_type' {aka 'long unsigned int'} and 'int' [-Wsign-compare] + 3501 | const size_t usable_size = seq.size() > frame ? seq.size() - frame : 0; + | ~~~~~~~~~~~^~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp: In instantiation of 'void ncbi::objects::x_Translate(const Container&, std::string&, int, const CGenetic_code*, bool, bool, bool, bool, bool*) [with Container = CSeqVector; std::string = std::__cxx11::basic_string]': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp:3985:16: required from here +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp:3501:43: warning: comparison of integer expressions of different signedness: 'ncbi::TSeqPos' {aka 'unsigned int'} and 'int' [-Wsign-compare] +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/indexer.cpp:44: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/indexer.cpp: In function 'int ncbi::objects::SkipMixedContent(const char*)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/indexer.cpp:3599:23: warning: comparison of integer expressions of different signedness: 'int' and 'long unsigned int' [-Wsign-compare] + 3599 | for (int i = 0; i < sizeof (mixedTags); i++) { + | ~~^~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/indexer.cpp: In member function 'void ncbi::objects::CWordPairIndexer::PopulateWordPairIndex(std::string)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/indexer.cpp:3676:23: warning: comparison of integer expressions of different signedness: 'int' and 'std::__cxx11::basic_string::size_type' {aka 'long unsigned int'} [-Wsign-compare] + 3676 | for (int i = 0; i < str.length(); i++) { + | ~~^~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/autodef.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef_feature_clause_base.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -28981,7 +29016,7 @@ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/autodef.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef_feature_clause_base.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -29005,39 +29040,25 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/feature_edit.cpp -o feature_edit.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef.cpp -o autodef.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef_feature_clause_base.cpp -o autodef_feature_clause_base.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef_source_desc.cpp -o autodef_source_desc.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef_available_modifier.cpp -o autodef_available_modifier.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef_mod_combo.cpp -o autodef_mod_combo.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbobj.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef_feature_clause_base.cpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_reader/seqdbcommon.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbobj.cpp:33: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -29051,19 +29072,22 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef_feature_clause_base.cpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef_source_desc.cpp:38: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/autodef.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef_available_modifier.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -29071,8 +29095,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/autodef_source_desc.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef_source_desc.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/autodef.hpp:36: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -29088,34 +29111,9 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/autodef.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef_feature_clause.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef_source_desc.cpp:38: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -29123,7 +29121,8 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/autodef.hpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/autodef_source_desc.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef_source_desc.cpp:34: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -29139,10 +29138,18 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/autodef.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef_available_modifier.cpp:34: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef_available_modifier.cpp: In static member function 'static std::string ncbi::objects::CAutoDefAvailableModifier::GetSubSourceLabel(ncbi::objects::CSubSource_Base::ESubtype)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef_available_modifier.cpp:348:14: warning: catching polymorphic type 'class ncbi::CException' by value [-Wcatch-value=] + 348 | } catch (CException) { + | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef_available_modifier.cpp: In static member function 'static std::string ncbi::objects::CAutoDefAvailableModifier::GetOrgModLabel(ncbi::objects::COrgMod_Base::ESubtype)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef_available_modifier.cpp:390:14: warning: catching polymorphic type 'class ncbi::CException' by value [-Wcatch-value=] + 390 | } catch (CException) { + | ^~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbobj.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -29150,7 +29157,10 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/autodef.hpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_reader/seqdbcommon.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbobj.cpp:33: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -29195,36 +29205,16 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef_feature_clause.cpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef_available_modifier.cpp: In static member function 'static std::string ncbi::objects::CAutoDefAvailableModifier::GetSubSourceLabel(ncbi::objects::CSubSource_Base::ESubtype)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef_available_modifier.cpp:348:14: warning: catching polymorphic type 'class ncbi::CException' by value [-Wcatch-value=] - 348 | } catch (CException) { - | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef_available_modifier.cpp: In static member function 'static std::string ncbi::objects::CAutoDefAvailableModifier::GetOrgModLabel(ncbi::objects::COrgMod_Base::ESubtype)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef_available_modifier.cpp:390:14: warning: catching polymorphic type 'class ncbi::CException' by value [-Wcatch-value=] - 390 | } catch (CException) { - | ^~~~~~~~~~ +dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/feature_edit.cpp -o feature_edit.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef.cpp -o autodef.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef_feature_clause_base.cpp -o autodef_feature_clause_base.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef_source_desc.cpp -o autodef_source_desc.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef_available_modifier.cpp -o autodef_available_modifier.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef_mod_combo.cpp -o autodef_mod_combo.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef_mod_combo.cpp: In member function 'bool ncbi::objects::CAutoDefModifierCombo::AddQual(bool, int, bool)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef_mod_combo.cpp:1033:10: warning: unused variable 'added' [-Wunused-variable] + 1033 | bool added = false, rval = false; + | ^~~~~ In file included from /usr/include/c++/13/algorithm:60, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:180: In static member function 'static _Up* std::__copy_move<_IsMove, true, std::random_access_iterator_tag>::__copy_m(_Tp*, _Tp*, _Up*) [with _Tp = ncbi::objects::feature::CFeatTree::CFeatInfo*; _Up = ncbi::objects::feature::CFeatTree::CFeatInfo*; bool _IsMove = false]', @@ -29255,10 +29245,6 @@ /usr/include/c++/13/bits/new_allocator.h:151:55: note: at offset [-9223372036854775808, -1] into destination object of size [8, 9223372036854775800] allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef_mod_combo.cpp: In member function 'bool ncbi::objects::CAutoDefModifierCombo::AddQual(bool, int, bool)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef_mod_combo.cpp:1033:10: warning: unused variable 'added' [-Wunused-variable] - 1033 | bool added = false, rval = false; - | ^~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef_source_group.cpp:37: @@ -29288,6 +29274,55 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/autodef.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef_feature_clause.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/autodef.hpp:36: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef_feature_clause.cpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ rmat-security -fcf-protection -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbgimask.cpp -o seqdbgimask.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbobj.cpp -o seqdbobj.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdb_lmdb.cpp -o seqdb_lmdb.o @@ -29302,34 +29337,34 @@ make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader' cd objtools/data_loaders/blastdb/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=ncbi_xloader_blastdb UNIX_PROJ="" sources= configurables=configurables.null cd objtools/blast/seqdb_writer/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=writedb UNIX_PROJ="" sources= configurables=configurables.null +cd objtools/blast/services/unit_test/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=blast_services_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services/unit_test' make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -cd objtools/blast/services/unit_test/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=blast_services_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services/unit_test' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services/unit_test' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/blastdb TMPL=ncbi_xloader_blastdb -w -j12 --jobserver-auth=7,8 all +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services/unit_test' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services/unit_test' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services/unit_test' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services/unit_test' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/services/unit_test TMPL=blast_services_unit_test -w -j12 --jobserver-auth=7,8 all make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services/unit_test' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services/unit_test' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer TMPL=writedb -w -j12 --jobserver-auth=7,8 all -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/services/unit_test TMPL=blast_services_unit_test -w -j12 --jobserver-auth=7,8 all +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/blastdb TMPL=ncbi_xloader_blastdb -w -j12 --jobserver-auth=7,8 all make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: warning: -j12 forced in submake: resetting jobserver mode. @@ -29456,17 +29491,10 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ --Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/split/split_exceptions.cpp -o split_exceptions.o -/bin/rm -f libid2_split.so .libid2_split.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libid2_split.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC blob_splitter.o blob_splitter_params.o split_blob.o blob_splitter_impl.o blob_splitter_parser.o blob_splitter_maker.o id_range.o object_splitinfo.o asn_sizer.o annot_piece.o chunk_info.o size.o split_exceptions.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxobjmgr -lseqsplit -lseqset -lseq -lgeneral -lxser -lxcompress -lxncbi -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libid2_split.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libid2_split.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libid2_split.so -/bin/ln -f .id2_split.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.id2_split.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/split' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/split' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/blastdb/bdbloader.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/blastdb/bdbloader.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/blastdb/cached_sequence.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/blastdb/cached_sequence.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ @@ -29480,8 +29508,7 @@ | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/blastdb/bdbloader.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/blastdb/cached_sequence.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/blastdb/cached_sequence.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/blastdb/bdbloader.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ @@ -29498,7 +29525,8 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_writer/writedb_convert.hpp:45, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_writer/writedb_files.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_files.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_gimask.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_gimask.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -29506,12 +29534,11 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Align_def_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Align_def.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/seq__.hpp:1, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_writer/writedb_general.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_writer/writedb_files.hpp:41: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_writer/writedb_error.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_writer/writedb.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_gimask.cpp:33: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -29532,21 +29559,21 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_writer/writedb_convert.hpp:45, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_writer/writedb_files.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_volume.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_impl.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_writer/writedb_isam.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_isam.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_writer/writedb_error.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_writer/writedb.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbictype.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistre.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_stack.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidbg.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbimisc.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiexpt.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/tempstr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_isam.cpp:33: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -29567,8 +29594,8 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_writer/writedb_convert.hpp:45, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_writer/writedb_files.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_gimask.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_gimask.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_column.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_column.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -29580,7 +29607,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_writer/writedb_error.hpp:42, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_writer/writedb.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_gimask.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_column.cpp:33: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -29600,7 +29627,8 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_writer/writedb_convert.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_convert.cpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_writer/writedb_files.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_files.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -29608,10 +29636,12 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/util/sequtil/sequtil_convert.hpp:34, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_convert.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Align_def_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Align_def.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/seq__.hpp:1, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_writer/writedb_general.hpp:45, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_writer/writedb_files.hpp:41: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -29627,40 +29657,41 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/build_db.cpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_writer/writedb_convert.hpp:45, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_convert.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbithr_conf.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbimtx.hpp:62, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbienv.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/build_db.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/util/sequtil/sequtil_convert.hpp:34, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_convert.cpp:34: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/build_db.cpp:44: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/blastdb/bdbloader.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_isam.cpp: In member function 'void ncbi::CWriteDB_IsamIndex::x_AddPdb(int, const ncbi::objects::CSeq_id&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_isam.cpp:659:9: warning: unused variable 'len' [-Wunused-variable] + 659 | int len = short_id.size(); + | ^~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, @@ -29683,13 +29714,26 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_writer/writedb_convert.hpp:45, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_writer/writedb_files.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_column.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_column.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_volume.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_impl.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_impl.cpp:44: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -29700,8 +29744,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_writer/writedb_error.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_writer/writedb.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_column.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_impl.cpp:34: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -29717,24 +29760,53 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; +-Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/split/split_exceptions.cpp -o split_exceptions.o +/bin/rm -f libid2_split.so .libid2_split.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libid2_split.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC blob_splitter.o blob_splitter_params.o split_blob.o blob_splitter_impl.o blob_splitter_parser.o blob_splitter_maker.o id_range.o object_splitinfo.o asn_sizer.o annot_piece.o chunk_info.o size.o split_exceptions.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxobjmgr -lseqsplit -lseqset -lseq -lgeneral -lxser -lxcompress -lxncbi -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libid2_split.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libid2_split.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libid2_split.so +/bin/ln -f .id2_split.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.id2_split.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/split' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/split' +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/build_db.cpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbithr_conf.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbimtx.hpp:62, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbienv.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/build_db.cpp:34: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/build_db.cpp:45: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_writer/writedb_convert.hpp:45, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_writer/writedb_files.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_volume.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_impl.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_writer/writedb_error.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_writer/writedb.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb.cpp:33: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -29750,26 +29822,27 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/build_db.cpp:44: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/blastdb/bdbloader.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_writer/writedb_convert.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_writer/writedb_files.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_writer/writedb_isam.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_isam.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/build_db.cpp:45: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbictype.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistre.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_stack.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidbg.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbimisc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiexpt.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/tempstr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_isam.cpp:33: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -29810,44 +29883,63 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:92:9: note: declared here 92 | fAllSeqIds NCBI_STD_DEPRECATED("This flag is no longer used in CFastaReader.") = 1<< 6, ///< Read Seq-ids past the first ^A (see note) | ^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_writer/writedb_convert.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_writer/writedb_files.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_volume.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_impl.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_impl.cpp:44: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_writer/writedb_error.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_impl.cpp:34: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_isam.cpp: In member function 'void ncbi::CWriteDB_IsamIndex::x_AddPdb(int, const ncbi::objects::CSeq_id&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_isam.cpp:659:9: warning: unused variable 'len' [-Wunused-variable] - 659 | int len = short_id.size(); - | ^~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_lmdb.cpp: In member function 'void ncbi::CWriteDB_LMDB::x_CommitTransaction()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_lmdb.cpp:295:55: warning: 'unsigned int ncbi::GetCpuCount()' is deprecated [-Wdeprecated-declarations] + 295 | unsigned int num_threads = GetCpuCount(); + | ~~~~~~~~~~~^~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbifile.hpp:53, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_lmdb.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_system.hpp:479:14: note: declared here + 479 | unsigned int GetCpuCount(void) + | ^~~~~~~~~~~ +0+ds/c++/src/objtools/data_loaders/genbank/reader_service.cpp -o reader_service.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/incr_time.cpp -o incr_time.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/info_cache.cpp -o info_cache.o +/bin/rm -f libncbi_xreader.a .libncbi_xreader.a.stamp +/bin/rm -f libncbi_xreader.so .libncbi_xreader.so.stamp +ar cr libncbi_xreader.a dispatcher.o reader.o writer.o processors.o wgsmaster.o reader_snp.o seqref.o blob_id.o request_result.o reader_id1_base.o reader_id2_base.o reader_service.o incr_time.o info_cache.o +/usr/bin/g++ -std=gnu++14 -shared -o libncbi_xreader.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC dispatcher.o reader.o writer.o processors.o wgsmaster.o reader_snp.o seqref.o blob_id.o request_result.o reader_id1_base.o reader_id2_base.o reader_service.o incr_time.o info_cache.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lid2 -lxobjmgr -lid1 -lseqedit -lseqsplit -lsubmit -lgenome_collection -lseqset -lseq -lpub -lmedline -lbiblio -lgeneral -lseqcode -lxcompress -lxser -lsequtil -lxconnect -lxutil -lxncbi -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libncbi_xreader.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libncbi_xreader.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libncbi_xreader.so +/bin/ln -f .ncbi_xreader.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.ncbi_xreader.dep +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libncbi_xreader.a /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libncbi_xreader.a /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libncbi_xreader.a +/bin/ln -f .ncbi_xreader-static.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.ncbi_xreader-static.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' +cd objtools/data_loaders/genbank/cache/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=ncbi_xreader_cache UNIX_PROJ="" sources= configurables=configurables.null +cd objtools/data_loaders/genbank/id1/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=ncbi_xreader_id1 UNIX_PROJ="" sources= configurables=configurables.null +cd objtools/data_loaders/genbank/id2/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=ncbi_xreader_id2 UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id1' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/cache' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id2' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id2' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/cache' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id1' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/cache' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id2' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id1' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id2' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/cache' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id1' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id2' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/cache' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id1' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/id2 TMPL=ncbi_xreader_id2 -w -j12 --jobserver-auth=7,8 all +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/id1 TMPL=ncbi_xreader_id1 -w -j12 --jobserver-auth=7,8 all +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache TMPL=ncbi_xreader_cache -w -j12 --jobserver-auth=7,8 all +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: warning: -j12 forced in submake: resetting jobserver mode. protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef_source_group.cpp -o autodef_source_group.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef_feature_clause.cpp -o autodef_feature_clause.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef_options.cpp -o autodef_options.o @@ -29860,86 +29952,67 @@ make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/util' cd objtools/seqmasks_io/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=seqmasks_io UNIX_PROJ="" sources= configurables=configurables.null cd algo/blast/dbindex/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=xalgoblastdbindex UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex' +cd objtools/alnmgr/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=alnmgr UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/seqmasks_io' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -cd objtools/alnmgr/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=alnmgr UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex' make[4]: warning: -j12 forced in submake: resetting jobserver mode. cd objtools/blast/blastdb_format/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=blastdb_format UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/alnmgr' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. cd objtools/edit/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=edit UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. cd objtools/blast/gene_info_reader/demo/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=gene_info_reader LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/edit' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/alnmgr' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -cd objtools/blast/seqdb_reader/demo/ && NCBI_BUT_EXPENDABLE=' (but expendable)' /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=seqdb_demo LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/demo' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -cd objtools/blast/seqdb_reader/test/ && NCBI_BUT_EXPENDABLE=' (but expendable)' /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=seqdb_perf LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/demo' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/demo' make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/seqmasks_io' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/test' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/seqmasks_io' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/seqmasks_io' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/seqmasks_io' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/alnmgr' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/alnmgr' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex TMPL=xalgoblastdbindex -w -j12 --jobserver-auth=7,8 all -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/alnmgr' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/edit' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/alnmgr' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/seqmasks_io TMPL=seqmasks_io -w -j12 --jobserver-auth=7,8 all +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/edit' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/edit' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/demo' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/edit' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/demo' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/alnmgr' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format TMPL=blastdb_format -w -j12 --jobserver-auth=7,8 all make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/demo' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/alnmgr' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/demo' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/demo' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/seqmasks_io TMPL=seqmasks_io -w -j12 --jobserver-auth=7,8 all make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/demo' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/demo' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr TMPL=alnmgr -w -j12 --jobserver-auth=7,8 all -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/edit' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/edit' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/demo' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/alnmgr' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/demo' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format TMPL=blastdb_format -w -j12 --jobserver-auth=7,8 all -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/gene_info_reader/demo TMPL=gene_info_reader -w -j12 --jobserver-auth=7,8 all +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/alnmgr' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr TMPL=alnmgr -w -j12 --jobserver-auth=7,8 all /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit TMPL=edit -w -j12 --jobserver-auth=7,8 all -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/test' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/demo TMPL=seqdb_demo -w -j12 --jobserver-auth=7,8 all -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/test' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex TMPL=xalgoblastdbindex -w -j12 --jobserver-auth=7,8 all +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/gene_info_reader/demo TMPL=gene_info_reader -w -j12 --jobserver-auth=7,8 all make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/test' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/test' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/test TMPL=seqdb_perf -w -j12 --jobserver-auth=7,8 all make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/seqmasks_io' /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/seqmasks_io/mask_cmdline_args.cpp -o mask_cmdline_args.o @@ -29948,9 +30021,6 @@ /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/seqmasks_io/mask_writer.cpp -o mask_writer.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/seqmasks_io/mask_writer_fasta.cpp -o mask_writer_fasta.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducimake[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/alnmgr' /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/aln_builders.cpp -o aln_builders.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/aln_converters.cpp -o aln_converters.o @@ -30074,157 +30144,32 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/test/seqdb_perf.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:85: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:77: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/seqmasks_io/mask_writer.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/request_result.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/writer.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/cache/writer_cache.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/writer_cache.cpp:31: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Seqdesc_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Seqdesc.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/seqmasks_io/mask_writer.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/writer.hpp:34: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -0+ds/c++/src/objtools/data_loaders/genbank/reader_service.cpp -o reader_service.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/incr_time.cpp -o incr_time.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/info_cache.cpp -o info_cache.o -/bin/rm -f libncbi_xreader.a .libncbi_xreader.a.stamp -ar cr libncbi_xreader.a dispatcher.o reader.o writer.o processors.o wgsmaster.o reader_snp.o seqref.o blob_id.o request_result.o reader_id1_base.o reader_id2_base.o reader_service.o incr_time.o info_cache.o -/bin/rm -f libncbi_xreader.so .libncbi_xreader.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libncbi_xreader.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC dispatcher.o reader.o writer.o processors.o wgsmaster.o reader_snp.o seqref.o blob_id.o request_result.o reader_id1_base.o reader_id2_base.o reader_service.o incr_time.o info_cache.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lid2 -lxobjmgr -lid1 -lseqedit -lseqsplit -lsubmit -lgenome_collection -lseqset -lseq -lpub -lmedline -lbiblio -lgeneral -lseqcode -lxcompress -lxser -lsequtil -lxconnect -lxutil -lxncbi -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libncbi_xreader.a /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libncbi_xreader.a /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libncbi_xreader.a -/bin/ln -f .ncbi_xreader-static.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.ncbi_xreader-static.dep -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libncbi_xreader.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libncbi_xreader.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libncbi_xreader.so -/bin/ln -f .ncbi_xreader.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.ncbi_xreader.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' -cd objtools/data_loaders/genbank/cache/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=ncbi_xreader_cache UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/cache' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/cache' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/cache' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/cache' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/gene_info_reader/demo/gene_info_reader_app.cpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 108 | auto_ptr m_memGi2GeneFile; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/request_result.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/reader_id2_base.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/id2/reader_id2.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/id2/reader_id2.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, @@ -30234,46 +30179,114 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_param.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/id2/reader_id2.cpp:32: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 111 | auto_ptr m_memGene2OffsetFile; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 114 | auto_ptr m_memGi2OffsetFile; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 117 | auto_ptr m_memGene2GiFile; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader_snp.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/processor.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/dispatcher.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/writer_cache.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:103:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 103 | auto_ptr m_Indices; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/cache' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache TMPL=ncbi_xreader_cache -w -j12 --jobserver-auth=7,8 all -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/gene_info_reader/demo/gene_info_reader_app.cpp: In member function 'virtual void CReadFilesApp::Init()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/gene_info_reader/demo/gene_info_reader_app.cpp:121:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 121 | auto_ptr arg_desc(new CArgDescriptions); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:154:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 154 | auto_ptr m_Indices; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/struc_comm_field.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/struc_comm_field.cpp:32: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/writer_cache.cpp: In member function 'virtual void ncbi::objects::CCacheWriter::InitializeCache(ncbi::objects::CReaderCacheManager&, const ncbi::TPluginManagerParamTree*)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/writer_cache.cpp:66:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 66 | auto_ptr id_params + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/writer_cache.cpp:68:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 68 | auto_ptr blob_params + | ^~~~~~~~ +/usr/include/cIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader_snp.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/processor.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/dispatcher.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/id2/reader_id2.cpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:103:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 103 | auto_ptr m_Indices; + | ^~~~~~~~ +++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:154:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 154 | auto_ptr m_Indices; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/writer_cache.cpp: In member function 'void ncbi::objects::CCacheWriter::WriteSeq_ids(const std::string&, const ncbi::objects::CLoadLockSeqIds&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/writer_cache.cpp:336:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 336 | auto_ptr writer + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/writer_cache.cpp: At global scope: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/writer_cache.cpp:532:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 532 | auto_ptr m_Writer; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/writer_cache.cpp:533:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 533 | auto_ptr m_Stream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/seqid_comp.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/seqids_extractor.hpp:56, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_tests.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_stats.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_builders.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/aln_builders.cpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnseq.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmatch.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmix.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmix.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -30281,7 +30294,10 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_builders.hpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Seq_align_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Seq_align.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmix.hpp:36: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -30297,58 +30313,63 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ - -o alndiag.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmap.cpp -o alnmap.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmapprint.cpp -o alnmapprint.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmatch.cpp -o alnmatch.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmerger.cpp -o alnmerger.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmix.cpp -o alnmix.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnpos_ci.cpp -o alnpos_ci.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducibIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex_factory.cpp:40: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/seqmasks_io/mask_writer.cpp:37: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex_factory.cpp:38: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Seqdesc_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Seqdesc.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/seqmasks_io/mask_writer.cpp:33: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex.cpp:41: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex_factory.cpp:40: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex.cpp:38: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex_factory.cpp:38: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/struc_comm_field.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex.cpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/struc_comm_field.cpp:32: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex.cpp:38: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/seqmasks_io/mask_writer.cpp:38: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/apply_object.cpp:39: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/apply_object.cpp:32: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnseq.hpp:216:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 216 | auto_ptr m_Starts; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -30360,10 +30381,12 @@ | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_explorer.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmap.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmapprint.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/seqid_comp.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/seqids_extractor.hpp:56, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_tests.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_stats.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_builders.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/aln_builders.cpp:37: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -30371,10 +30394,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Dense_seg_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Dense_seg.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmap.hpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_builders.hpp:36: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -30390,21 +30410,27 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/test/seqdb_perf.cpp: In member function 'void CSeqDBPerfApp::x_UpdateMemoryUsage(int)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/test/seqdb_perf.cpp:114:23: warning: 'bool ncbi::GetMemoryUsage(size_t*, size_t*, size_t*)' is deprecated [-Wdeprecated-declarations] - 114 | if (GetMemoryUsage(&mu.total, &mu.resident, &mu.shared)) { - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/test/seqdb_perf.cpp:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_system.hpp:511:13: note: declared here - 511 | extern bool GetMemoryUsage(size_t* total, size_t* resident, size_t* shared); - | ^~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/test/seqdb_perf.cpp: In member function 'int CSeqDBPerfApp::x_ScanDatabase()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/test/seqdb_perf.cpp:153:31: warning: comparison of integer expressions of different signedness: 'ssize_t' {aka 'long int'} and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] - 153 | for (ssize_t i = 0; i < oids2iterate.size(); i++) { - | ~~^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/test/seqdb_perf.cpp: In member function 'virtual void CSeqDBPerfApp::Init()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/test/seqdb_perf.cpp:285:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 285 | auto_ptr arg_desc(new CArgDescriptions); +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/seqmasks_io/mask_bdb_reader.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbictype.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistre.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_stack.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidbg.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/seqmasks_io/mask_bdb_reader.cpp:34: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/gene_info_reader/demo/gene_info_reader_app.cpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 108 | auto_ptr m_memGi2GeneFile; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, @@ -30418,52 +30444,37 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnseq.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmatch.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmatch.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 111 | auto_ptr m_memGene2OffsetFile; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_id_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_id.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnseq.hpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 114 | auto_ptr m_memGi2OffsetFile; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 117 | auto_ptr m_memGene2GiFile; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/gene_info_reader/demo/gene_info_reader_app.cpp: In member function 'virtual void CReadFilesApp::Init()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/gene_info_reader/demo/gene_info_reader_app.cpp:121:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 121 | auto_ptr arg_desc(new CArgDescriptions); + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seqid_guesser.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/seqmasks_io/mask_writer.cpp:38: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/general/Dbtag_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/general/Dbtag.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seqid_guesser.cpp:31: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -30479,49 +30490,44 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/autodef.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/edit/autodef_with_tax.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/autodef_with_tax.cpp:33: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/request_result.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/reader_id1_base.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/id1/reader_id1.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/id1/reader_id1.cpp:34: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/edit/autodef_with_tax.hpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_param.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/id1/reader_id1.cpp:32: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/edit/dblink_field.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/dblink_field.cpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex_factory.cpp:41: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/general/Dbtag_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/general/Dbtag.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/dblink_field.cpp:32: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -30537,52 +30543,68 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/promote.cpp:45: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; + -o alndiag.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmap.cpp -o alnmap.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmapprint.cpp -o alnmapprint.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmatch.cpp -o alnmatch.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmerger.cpp -o alnmerger.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmix.cpp -o alnmix.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnpos_ci.cpp -o alnpos_ci.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducibmake[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/blastdb/bdbloader.cpp -o bdbloader.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/blastdb/cached_sequence.cpp -o cached_sequence.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/blastdb/local_blastdb_adapter.cpp -o local_blastdb_adapter.o +/bin/rm -f libncbi_xloader_blastdb.so .libncbi_xloader_blastdb.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libncbi_xloader_blastdb.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC bdbloader.o cached_sequence.o local_blastdb_adapter.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lseqdb -lxobjmgr -lseqset -lseq -lxncbi -llmdb -lpthread -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libncbi_xloader_blastdb.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libncbi_xloader_blastdb.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libncbi_xloader_blastdb.so +/bin/ln -f .ncbi_xloader_blastdb.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.ncbi_xloader_blastdb.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' +cd objtools/blast/seqdb_reader/demo/ && NCBI_BUT_EXPENDABLE=' (but expendable)' /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=seqdb_demo LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/demo' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/demo' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/demo' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/demo' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/demo' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/demo TMPL=seqdb_demo -w -j12 --jobserver-auth=7,8 all +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/request_result.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/cache/reader_cache.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/reader_cache.cpp:31: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/promote.cpp:32: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader.hpp:32: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seqid_guesser.cpp: In constructor 'ncbi::objects::edit::CSeqIdGuesser::CSeqIdGuesser(ncbi::objects::CSeq_entry_Handle)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seqid_guesser.cpp:92:48: warning: 'static ncbi::SIZE_TYPE ncbi::NStr::Find(ncbi::CTempString, ncbi::CTempString, ncbi::SIZE_TYPE, ncbi::SIZE_TYPE, EOccurrence, ECase)' is deprecated [-Wdeprecated-declarations] - 92 | size_t pos = NStr::Find(tag_str, "/", 0, string::npos, NStr::eLast); - | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:5344:11: note: declared here - 5344 | SIZE_TYPE NStr::Find(const CTempString str, const CTempString pattern, - | ^~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seqid_guesser.cpp: In static member function 'static std::vector > ncbi::objects::edit::CSeqIdGuesser::GetIdStrings(ncbi::objects::CBioseq_Handle)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seqid_guesser.cpp:171:44: warning: 'static ncbi::SIZE_TYPE ncbi::NStr::Find(ncbi::CTempString, ncbi::CTempString, ncbi::SIZE_TYPE, ncbi::SIZE_TYPE, EOccurrence, ECase)' is deprecated [-Wdeprecated-declarations] - 171 | size_t pos = NStr::Find(tag_str, "/", 0, string::npos, NStr::eLast); - | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:5344:11: note: declared here - 5344 | SIZE_TYPE NStr::Find(const CTempString str, const CTempString pattern, - | ^~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_explorer.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_serial.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/aln_serial.cpp:36: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/blastdb_dataextract.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/seq_writer.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/seq_writer.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -30590,8 +30612,12 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/pairwise_aln.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_serial.hpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_reader/seqdbcommon.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_reader/seqdb.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/blastdb_seqid.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/seq_writer.hpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -30607,44 +30633,29 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnseq.hpp:216:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 216 | auto_ptr m_Starts; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader_snp.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/processor.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/dispatcher.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/reader_cache.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:103:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 103 | auto_ptr m_Indices; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:154:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 154 | auto_ptr m_Indices; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmatch.cpp: In static member function 'static bool ncbi::objects::CAlnMixMatches::x_CompareChainScores(const ncbi::CRef&, const ncbi::CRef&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmatch.cpp:76:55: warning: suggest parentheses around '&&' within '||' [-Wparentheses] - 76 | match1->m_ChainScore == match2->m_ChainScore && - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ - 77 | match1->m_Score > match2->m_Score || - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmatch.cpp: In member function 'void ncbi::objects::CAlnMixMatches::Add(const ncbi::objects::CDense_seg&, TAddFlags)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmatch.cpp:192:59: warning: suggest parentheses around '&&' within '||' [-Wparentheses] - 192 | (aln_seq1->m_StrandScore > 0 && - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ - 193 | strand1 == eNa_strand_minus || - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmatch.cpp:196:59: warning: suggest parentheses around '&&' within '||' [-Wparentheses] - 196 | aln_seq2->m_StrandScore > 0 && - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ - 197 | strand2 == eNa_strand_minus || - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmatch.cpp:198:59: warning: suggest parentheses around '&&' within '||' [-Wparentheses] - 198 | aln_seq2->m_StrandScore < 0 && - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ - 199 | strand2 != eNa_strand_minus)) { - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/apply_object.cpp:39: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/edit/struc_comm_field.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/struc_comm_field.cpp:47: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/apply_object.cpp:32: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -30660,22 +30671,14 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_lmdb.cpp: In member function 'void ncbi::CWriteDB_LMDB::x_CommitTransaction()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_lmdb.cpp:295:55: warning: 'unsigned int ncbi::GetCpuCount()' is deprecated [-Wdeprecated-declarations] - 295 | unsigned int num_threads = GetCpuCount(); - | ~~~~~~~~~~~^~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbifile.hpp:53, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_lmdb.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_system.hpp:479:14: note: declared here - 479 | unsigned int GetCpuCount(void) - | ^~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnseq.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmatch.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmix.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmix.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/seqid_comp.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/seqids_extractor.hpp:56, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_tests.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_stats.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_converters.hpp:46, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/aln_converters.cpp:51: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -30684,9 +30687,9 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Seq_align_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Seq_align.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmix.hpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Dense_seg_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Dense_seg.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/aln_converters.cpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -30702,33 +30705,9 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/sequence_istream_fasta.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:36: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_explorer.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmap.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmap.cpp:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/edit/string_constraint.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/string_constraint.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/promote.cpp:45: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -30736,18 +30715,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/string_constraint.cpp:32: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Dense_seg_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Dense_seg.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmap.hpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/promote.cpp:32: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -30763,47 +30731,169 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/aln_generators.cpp:47: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; + -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/build_db.cpp -o build_db.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/multisource_util.cpp -o multisource_util.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/criteria.cpp -o criteria.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_lmdb.cpp -o writedb_lmdb.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/seqidlist_writer.cpp -o seqidlist_writer.o +/bin/rm -f libwritedb.so .libwritedb.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libwritedb.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC writedb.o writedb_impl.o writedb_volume.o writedb_files.o writedb_isam.o writedb_gimask.o writedb_convert.o writedb_general.o writedb_column.o mask_info_registry.o taxid_set.o build_db.o multisource_util.o criteria.o writedb_lmdb.o seqidlist_writer.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lseqdb -lxobjread -lxobjmgr -lblastdb -lseqset -lseq -lgeneral -lxser -lsequtil -lxutil -lxncbi -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_dIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader_snp.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/processor.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/dispatcher.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/id1/reader_id1.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:103:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 103 | auto_ptr m_Indices; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Dense_seg_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Dense_seg.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/aln_generators.cpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:154:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 154 | auto_ptr m_Indices; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; +iff.sh /bin/ln -f libwritedb.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libwritedb.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libwritedb.so +/bin/ln -f .writedb.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.writedb.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer' +cd objtools/blast/seqdb_reader/test/ && NCBI_BUT_EXPENDABLE=' (but expendable)' /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=seqdb_perf LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/test' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/test' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/test' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/test' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/test' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/test TMPL=seqdb_perf -w -j12 --jobserver-auth=7,8 all +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/sequence_istream_fasta.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:36: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/test/seqdb_perf.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:85: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:77: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, @@ -30849,30 +30939,30 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:92:9: note: declared here 92 | fAllSeqIds NCBI_STD_DEPRECATED("This flag is no longer used in CFastaReader.") = 1<< 6, ///< Read Seq-ids past the first ^A (see note) | ^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/edit/gb_block_field.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/gb_block_field.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/reader_cache.cpp: In function 'ncbi::objects::SCacheInfo::TParams* ncbi::objects::GetCacheParams(const SCacheInfo::TParams*, SCacheInfo::EReaderOrWriter, SCacheInfo::EIdOrBlob)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/reader_cache.cpp:1647:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1647 | auto_ptr section | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/gb_block_field.cpp:32: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/reader_cache.cpp: In static member function 'static ncbi::ICache* ncbi::objects::SCacheInfo::CreateCache(const TParams*, EReaderOrWriter, EIdOrBlob)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/reader_cache.cpp:1676:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1676 | auto_ptr cache_params | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/reader_cache.cpp: In member function 'virtual void ncbi::objects::CCacheReader::InitializeCache(ncbi::objects::CReaderCacheManager&, const ncbi::TPluginManagerParamTree*)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/reader_cache.cpp:1696:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1696 | auto_ptr id_params + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/reader_cache.cpp:1698:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1698 | auto_ptr blob_params + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -30895,28 +30985,44 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/seqmasks_io/mask_bdb_reader.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex.cpp:42: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbictype.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistre.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_stack.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidbg.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/seqmasks_io/mask_bdb_reader.cpp:34: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/demo' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=gene_info_reader /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/gene_info_reader/demo/gene_info_reader_app.cpp -o gene_info_reader_app.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie gene_info_reader_app.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lgene_info -lxobjutil -lseqdb -lblastdb -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -llmdb -lpthread -lm -lpthread -o gene_info_reader +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f gene_info_reader /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f gene_info_reader /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/gene_info_reader +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/demo' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/demo' +cd objtools/blast/seqdb_writer/unit_test/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=writedb_lmdb_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/seqmasks_io/mask_writer_fasta.cpp:38: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnseq.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmatch.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmatch.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -30925,29 +31031,36 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Bioseq_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Bioseq.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/seqmasks_io/mask_writer_fasta.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_id_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_id.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnseq.hpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/gene_utils.cpp:34: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/gene_utils.cpp:32: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/field_handler.cpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/unit_test TMPL=writedb_lmdb_unit_test -w -j12 --jobserver-auth=7,8 all +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/autodef.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/edit/autodef_with_tax.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/autodef_with_tax.cpp:33: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -30955,7 +31068,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/field_handler.cpp:32: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/edit/autodef_with_tax.hpp:35: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -30971,15 +31084,39 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex_factory.cpp:42: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/blastdb_dataextract.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/blastdb_formatter.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/blastdb_formatter.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbictype.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistre.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_stack.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidbg.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbimisc.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiexpt.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/invalid_data_exception.hpp:31, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/blastdb_formatter.cpp:35: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -30995,25 +31132,45 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/seqid_comp.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/seqids_extractor.hpp:56, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_tests.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_stats.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_converters.hpp:46, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/aln_converters.cpp:51: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/seqmasks_io/mask_fasta_reader.hpp:94:32: warning: 'ncbi::objects::CFastaReader::fAllSeqIds' is deprecated: This flag is no longer used in CFastaReader. [-Wdeprecated-declarations] + 94 | objects::CFastaReader::fAllSeqIds | + | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:92:9: note: declared here + 92 | fAllSeqIds NCBI_STD_DEPRECATED("This flag is no longer used in CFastaReader.") = 1<< 6, ///< Read Seq-ids past the first ^A (see note) + | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/seqmasks_io/mask_fasta_reader.hpp:94:32: warning: 'ncbi::objects::CFastaReader::fAllSeqIds' is deprecated: This flag is no longer used in CFastaReader. [-Wdeprecated-declarations] + 94 | objects::CFastaReader::fAllSeqIds | + | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:92:9: note: declared here + 92 | fAllSeqIds NCBI_STD_DEPRECATED("This flag is no longer used in CFastaReader.") = 1<< 6, ///< Read Seq-ids past the first ^A (see note) + | ^~~~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/blastdb_dataextract.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/blastdb_dataextract.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Dense_seg_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Dense_seg.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/aln_converters.cpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbictype.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistre.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_stack.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidbg.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbimisc.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiexpt.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/invalid_data_exception.hpp:31, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/blastdb_dataextract.cpp:34: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -31032,10 +31189,7 @@ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnseq.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmatch.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmerger.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmerger.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/seqmasks_io/mask_writer_fasta.cpp:38: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -31044,24 +31198,12 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Seq_align_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Seq_align.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmerger.hpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Bioseq_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Bioseq.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/seqmasks_io/mask_writer_fasta.cpp:33: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/seqmasks_io/mask_fasta_reader.hpp:94:32: warning: 'ncbi::objects::CFastaReader::fAllSeqIds' is deprecated: This flag is no longer used in CFastaReader. [-Wdeprecated-declarations] - 94 | objects::CFastaReader::fAllSeqIds | - | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:92:9: note: declared here - 92 | fAllSeqIds NCBI_STD_DEPRECATED("This flag is no longer used in CFastaReader.") = 1<< 6, ///< Read Seq-ids past the first ^A (see note) - | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/seqmasks_io/mask_fasta_reader.hpp:94:32: warning: 'ncbi::objects::CFastaReader::fAllSeqIds' is deprecated: This flag is no longer used in CFastaReader. [-Wdeprecated-declarations] - 94 | objects::CFastaReader::fAllSeqIds | - | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:92:9: note: declared here - 92 | fAllSeqIds NCBI_STD_DEPRECATED("This flag is no longer used in CFastaReader.") = 1<< 6, ///< Read Seq-ids past the first ^A (see note) - | ^~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ @@ -31074,14 +31216,9 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmap.cpp: In member function 'ncbi::CRef ncbi::objects::CAlnMap::CreateAlignFromRange(const std::vector&, ncbi::TSignedSeqPos, ncbi::TSignedSeqPos, ESegmentTrimFlag)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmap.cpp:1472:35: warning: comparison of integer expressions of different signedness: 'ncbi::objects::CAlnMap::TNumrow' {aka 'int'} and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] - 1472 | for (TNumrow row = 0; row < selected_rows.size(); row++) { - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/edit/text_desc_field.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/text_desc_field.cpp:41: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seqid_guesser.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -31089,7 +31226,10 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/text_desc_field.cpp:32: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/general/Dbtag_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/general/Dbtag.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seqid_guesser.cpp:31: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -31105,18 +31245,21 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnseq.hpp:216:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 216 | auto_ptr m_Starts; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/gene_utils.cpp:34: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/gene_utils.cpp:32: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/demo' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=gene_info_reader /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/gene_info_reader/demo/gene_info_reader_app.cpp -o gene_info_reader_app.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie gene_info_reader_app.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lgene_info -lxobjutil -lseqdb -lblastdb -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -llmdb -lpthread -lm -lpthread -o gene_info_reader -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f gene_info_reader /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f gene_info_reader /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/gene_info_reader -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/demo' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, @@ -31127,20 +31270,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/demo' -cd objtools/data_loaders/genbank/id1/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=ncbi_xreader_id1 UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id1' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/edit/struc_comm_field.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/struc_comm_field.cpp:47: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ @@ -31153,13 +31282,49 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex.cpp:42: +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services/unit_test' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=blast_services_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/services/unit_test/blast_services_test.cpp -o blast_services_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie blast_services_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lblast_services -lxnetblastcli -lxnetblast -lseqdb -lblastdb -lscoremat -lxconnect -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -llmdb -lpthread -lm -lpthread -o blast_services_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blast_services_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f blast_services_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blast_services_unit_test +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services/unit_test' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services/unit_test' +cd objtools/blast/seqdb_writer/unit_test/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=writedb_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seqid_guesser.cpp: In constructor 'ncbi::objects::edit::CSeqIdGuesser::CSeqIdGuesser(ncbi::objects::CSeq_entry_Handle)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seqid_guesser.cpp:92:48: warning: 'static ncbi::SIZE_TYPE ncbi::NStr::Find(ncbi::CTempString, ncbi::CTempString, ncbi::SIZE_TYPE, ncbi::SIZE_TYPE, EOccurrence, ECase)' is deprecated [-Wdeprecated-declarations] + 92 | size_t pos = NStr::Find(tag_str, "/", 0, string::npos, NStr::eLast); + | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:5344:11: note: declared here + 5344 | SIZE_TYPE NStr::Find(const CTempString str, const CTempString pattern, + | ^~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/blastdb_dataextract.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/seq_formatter.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/seq_formatter.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seqid_guesser.cpp: In static member function 'static std::vector > ncbi::objects::edit::CSeqIdGuesser::GetIdStrings(ncbi::objects::CBioseq_Handle)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seqid_guesser.cpp:171:44: warning: 'static ncbi::SIZE_TYPE ncbi::NStr::Find(ncbi::CTempString, ncbi::CTempString, ncbi::SIZE_TYPE, ncbi::SIZE_TYPE, EOccurrence, ECase)' is deprecated [-Wdeprecated-declarations] + 171 | size_t pos = NStr::Find(tag_str, "/", 0, string::npos, NStr::eLast); + | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:5344:11: note: declared here + 5344 | SIZE_TYPE NStr::Find(const CTempString str, const CTempString pattern, + | ^~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_reader/seqdbcommon.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_reader/seqdb.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/blastdb_seqid.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/seq_formatter.hpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -31175,15 +31340,139 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id1' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id1' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test' +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/dbindex/sequence_istream_fasta.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex.cpp:55: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/unit_test TMPL=writedb_unit_test -w -j12 --jobserver-auth=7,8 all +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/unit_test/writedb_lmdb_unit_test.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:85: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:77: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 364 | auto_ptr &feat_ci, | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id1' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id1' /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -31193,33 +31482,24 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/id1 TMPL=ncbi_xreader_id1 -w -j12 --jobserver-auth=7,8 all -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/promote.cpp: In member function 'void ncbi::objects::edit::CPromote::x_PromoteCdregion(ncbi::objects::CSeq_feat&, TRnaMap*) const': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/promote.cpp:224:51: warning: 'static void ncbi::objects::CCdregion_translate::TranslateCdregion(std::string&, const ncbi::objects::CSeq_feat&, ncbi::objects::CScope&, bool, bool, bool*, ETranslationLengthProblemOptions)' is deprecated [-Wdeprecated-declarations] - 224 | CCdregion_translate::TranslateCdregion(data, - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ - 225 | feat, - | ~~~~~ - 226 | x_Scope(), - | ~~~~~~~~~~ - 227 | include_stop, - | ~~~~~~~~~~~~~ - 228 | remove_trailingX); - | ~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:940:17: note: declared here - 940 | static void TranslateCdregion(string& prot, - | ^~~~~~~~~~~~~~~~~ +make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex_factory.cpp:41: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/aln_generators.cpp:47: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Dense_seg_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Dense_seg.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/aln_generators.cpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[5]: warning: -j12 forced in submake: resetting jobserver mode. /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ @@ -31229,55 +31509,60 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 528 | mutable auto_ptr m_AnnotNames; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/promote.cpp: In member function 'void ncbi::objects::edit::CPromote::x_PromoteCdregion(ncbi::objects::CSeq_feat&, TRnaMap*) const': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/promote.cpp:224:51: warning: 'static void ncbi::objects::CCdregion_translate::TranslateCdregion(std::string&, const ncbi::objects::CSeq_feat&, ncbi::objects::CScope&, bool, bool, bool*, ETranslationLengthProblemOptions)' is deprecated [-Wdeprecated-declarations] + 224 | CCdregion_translate::TranslateCdregion(data, + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ + 225 | feat, + | ~~~~~ + 226 | x_Scope(), + | ~~~~~~~~~~ + 227 | include_stop, + | ~~~~~~~~~~~~~ + 228 | remove_trailingX); + | ~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:940:17: note: declared here + 940 | static void TranslateCdregion(string& prot, + | ^~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnseq.hpp:216:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 216 | auto_ptr m_Starts; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/blastdb_dataextract.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/blastdb_dataextract.cpp:35: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_explorer.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmap.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmap.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbictype.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistre.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_stack.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidbg.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbimisc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiexpt.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/invalid_data_exception.hpp:31, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/blastdb_dataextract.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Dense_seg_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Dense_seg.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmap.hpp:36: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/blastdb_dataextract.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/blastdb_formatter.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/blastdb_formatter.cpp:36: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/field_handler.cpp:39: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbictype.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistre.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_stack.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidbg.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbimisc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiexpt.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/invalid_data_exception.hpp:31, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/blastdb_formatter.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/field_handler.cpp:32: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -31293,6 +31578,21 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/dbindex/sequence_istream_fasta.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex_factory.cpp:55: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ @@ -31302,34 +31602,64 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 528 | mutable auto_ptr m_AnnotNames; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/blastdb_dataextract.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/seq_formatter.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/seq_formatter.cpp:35: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnseq.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmatch.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmerger.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmerger.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_reader/seqdbcommon.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_reader/seqdb.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/blastdb_seqid.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/seq_formatter.hpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Seq_align_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Seq_align.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmerger.hpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/align_ci.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp:45: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/edit/text_desc_field.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/text_desc_field.cpp:41: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -31337,10 +31667,19 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp:32: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/text_desc_field.cpp:32: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_explorer.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmap.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmapprint.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ @@ -31353,6 +31692,127 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Dense_seg_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Dense_seg.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmap.hpp:36: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/unit_test/criteria_unit_test.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:85: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:77: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ @@ -31365,12 +31825,84 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/blastdb_dataextract.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/seq_writer.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/seq_writer.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmatch.cpp: In static member function 'static bool ncbi::objects::CAlnMixMatches::x_CompareChainScores(const ncbi::CRef&, const ncbi::CRef&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmatch.cpp:76:55: warning: suggest parentheses around '&&' within '||' [-Wparentheses] + 76 | match1->m_ChainScore == match2->m_ChainScore && + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ + 77 | match1->m_Score > match2->m_Score || + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmatch.cpp: In member function 'void ncbi::objects::CAlnMixMatches::Add(const ncbi::objects::CDense_seg&, TAddFlags)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmatch.cpp:192:59: warning: suggest parentheses around '&&' within '||' [-Wparentheses] + 192 | (aln_seq1->m_StrandScore > 0 && + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ + 193 | strand1 == eNa_strand_minus || + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmatch.cpp:196:59: warning: suggest parentheses around '&&' within '||' [-Wparentheses] + 196 | aln_seq2->m_StrandScore > 0 && + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ + 197 | strand2 == eNa_strand_minus || + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmatch.cpp:198:59: warning: suggest parentheses around '&&' within '||' [-Wparentheses] + 198 | aln_seq2->m_StrandScore < 0 && + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ + 199 | strand2 != eNa_strand_minus)) { + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/seq_writer.hpp:85:69: warning: 'CSeqFormatterConfig' is deprecated [-Wdeprecated-declarations] + 85 | CSeqFormatterConfig config = CSeqFormatterConfig()); + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/seq_writer.hpp:43:24: note: declared here + 43 | struct NCBI_DEPRECATED CSeqFormatterConfig { + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/seq_writer.hpp:96:85: warning: 'CSeqFormatterConfig' is deprecated [-Wdeprecated-declarations] + 96 | void DumpAll(CSeqDB& blastdb, CSeqFormatterConfig config = CSeqFormatterConfig()); + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/seq_writer.hpp:43:24: note: declared here + 43 | struct NCBI_DEPRECATED CSeqFormatterConfig { + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/seq_writer.hpp:85:68: warning: 'CSeqFormatterConfig' is deprecated [-Wdeprecated-declarations] + 85 | CSeqFormatterConfig config = CSeqFormatterConfig()); + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/seq_writer.hpp:43:24: note: declared here + 43 | struct NCBI_DEPRECATED CSeqFormatterConfig { + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/seq_writer.hpp:96:84: warning: 'CSeqFormatterConfig' is deprecated [-Wdeprecated-declarations] + 96 | void DumpAll(CSeqDB& blastdb, CSeqFormatterConfig config = CSeqFormatterConfig()); + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/seq_writer.hpp:43:24: note: declared here + 43 | struct NCBI_DEPRECATED CSeqFormatterConfig { + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/seq_writer.cpp:49:74: warning: 'CSeqFormatterConfig' is deprecated [-Wdeprecated-declarations] + 49 | CSeqFormatterConfig config /* = CSeqFormatterConfig() */) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/seq_writer.hpp:43:24: note: declared here + 43 | struct NCBI_DEPRECATED CSeqFormatterConfig { + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/seq_writer.cpp:270:72: warning: 'CSeqFormatterConfig' is deprecated [-Wdeprecated-declarations] + 270 | void CSeqFormatter::DumpAll(CSeqDB& blastdb, CSeqFormatterConfig config) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/seq_writer.hpp:43:24: note: declared here + 43 | struct NCBI_DEPRECATED CSeqFormatterConfig { + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex.cpp: In function 'const ncbi::blastdbindex::SIndexHeader ncbi::blastdbindex::ReadIndexHeader(void*) [with bool LEGACY = true]': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex.cpp:306:19: warning: variable 'tmp' set but not used [-Wunused-but-set-variable] + 306 | unsigned long tmp; + | ^~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/edit/gb_block_field.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/gb_block_field.cpp:38: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -31378,12 +31910,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_reader/seqdbcommon.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_reader/seqdb.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/blastdb_seqid.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/seq_writer.hpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/gb_block_field.cpp:32: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -31399,6 +31926,117 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/unit_test/writedb_unit_test.cpp:46: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:85: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:77: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: @@ -31408,59 +32046,71 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex_factory.cpp: In member function 'std::string ncbi::blastdbindex::CSubjectMap_Factory_Base::extractSeqVector(TSeqData&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex_factory.cpp:658:47: warning: 'std::string ncbi::objects::sequence::GetTitle(const ncbi::objects::CBioseq_Handle&, TGetTitleFlags)' is deprecated [-Wdeprecated-declarations] + 658 | string idstr = objects::sequence::GetTitle( bsh ); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:289:8: note: declared here + 289 | string GetTitle(const CBioseq_Handle& hnd, TGetTitleFlags flags = 0); + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/edit/dblink_field.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/dblink_field.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/general/Dbtag_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/general/Dbtag.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/dblink_field.cpp:32: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmap.cpp: In member function 'ncbi::CRef ncbi::objects::CAlnMap::CreateAlignFromRange(const std::vector&, ncbi::TSignedSeqPos, ncbi::TSignedSeqPos, ESegmentTrimFlag)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmap.cpp:1472:35: warning: comparison of integer expressions of different signedness: 'ncbi::objects::CAlnMap::TNumrow' {aka 'int'} and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] + 1472 | for (TNumrow row = 0; row < selected_rows.size(); row++) { + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmerger.cpp: In member function 'void ncbi::objects::CAlnMixMerger::x_CreateDenseg()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmerger.cpp:1210:44: warning: comparison of integer expressions of different signedness: 'const unsigned int' and 'int' [-Wsign-compare] - 1210 | if (start_its_i->second->first != -1) { - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/field_handler.cpp:43: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/edit/string_constraint.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/string_constraint.cpp:33: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/string_constraint.cpp:32: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -31476,53 +32126,53 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/dbindex/sequence_istream_fasta.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex.cpp:55: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex_factory.cpp: In member function 'void ncbi::blastdbindex::COffsetData_Factory::Save(ncbi::CNcbiOstream&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex_factory.cpp:1409:10: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1409 | std::auto_ptr< CNcbiOfstream > stats; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex_factory.cpp:42: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_explorer.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_serial.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/aln_serial.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/pairwise_aln.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_serial.hpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex_factory.cpp: In static member function 'static void ncbi::blastdbindex::CDbIndex_Factory::do_create_1_2(ncbi::blastdbindex::CSequenceIStream&, const std::string&, ncbi::blastdbindex::CDbIndex::TSeqNum, ncbi::blastdbindex::CDbIndex::TSeqNum, ncbi::blastdbindex::CDbIndex::TSeqNum&, ncbi::blastdbindex::CDbIndex::TSeqNum&, const ncbi::blastdbindex::CDbIndex::SOptions&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex_factory.cpp:1665:10: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1665 | std::auto_ptr< COffsetList::CDataPool > pool( + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex.cpp: In function 'const ncbi::blastdbindex::SIndexHeader ncbi::blastdbindex::ReadIndexHeader(void*) [with bool LEGACY = true]': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex.cpp:306:19: warning: variable 'tmp' set but not used [-Wunused-but-set-variable] - 306 | unsigned long tmp; - | ^~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnseq.hpp:216:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 216 | auto_ptr m_Starts; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -31535,26 +32185,20 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/dbindex/sequence_istream_fasta.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex_factory.cpp:55: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -ly_object.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/string_constraint.cpp -o string_constraint.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seqid_guesser.cpp -o seqid_guesser.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/dblink_field.cpp -o dblink_field.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/struc_comm_field.cpp -o struc_comm_field.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/text_desc_field.cpp -o text_desc_field.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/gb_block_field.cpp -o gb_block_field.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmerger.cpp: In member function 'void ncbi::objects::CAlnMixMerger::x_CreateDenseg()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmerger.cpp:1210:44: warning: comparison of integer expressions of different signedness: 'const unsigned int' and 'int' [-Wsign-compare] + 1210 | if (start_its_i->second->first != -1) { + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 364 | auto_ptr &feat_ci, | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here @@ -31566,57 +32210,32 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/request_result.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/cache/reader_cache.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/reader_cache.cpp:31: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/align_ci.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp:45: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader.hpp:32: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp:32: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp:57: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/blastdb/bdbloader.cpp -o bdbloader.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/blastdb/cached_sequence.cpp -o cached_sequence.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/blastdb/local_blastdb_adapter.cpp -o local_blastdb_adapter.o -/bin/rm -f libncbi_xloader_blastdb.so .libncbi_xloader_blastdb.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libncbi_xloader_blastdb.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC bdbloader.o cached_sequence.o local_blastdb_adapter.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lseqdb -lxobjmgr -lseqset -lseq -lxncbi -llmdb -lpthread -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libncbi_xloader_blastdb.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libncbi_xloader_blastdb.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libncbi_xloader_blastdb.so -/bin/ln -f .ncbi_xloader_blastdb.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.ncbi_xloader_blastdb.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' -cd objtools/data_loaders/genbank/id2/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=ncbi_xreader_id2 UNIX_PROJ="" sources= configurables=configurables.null -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id2' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 364 | auto_ptr &feat_ci, | ^~~~~~~~ @@ -31629,100 +32248,52 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id2' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id2' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id2' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id2' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/id2 TMPL=ncbi_xreader_id2 -w -j12 --jobserver-auth=7,8 all -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex_factory.cpp: In member function 'std::string ncbi::blastdbindex::CSubjectMap_Factory_Base::extractSeqVector(TSeqData&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex_factory.cpp:658:47: warning: 'std::string ncbi::objects::sequence::GetTitle(const ncbi::objects::CBioseq_Handle&, TGetTitleFlags)' is deprecated [-Wdeprecated-declarations] - 658 | string idstr = objects::sequence::GetTitle( bsh ); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:289:8: note: declared here - 289 | string GetTitle(const CBioseq_Handle& hnd, TGetTitleFlags flags = 0); - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/seq_writer.hpp:85:69: warning: 'CSeqFormatterConfig' is deprecated [-Wdeprecated-declarations] - 85 | CSeqFormatterConfig config = CSeqFormatterConfig()); - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/seq_writer.hpp:43:24: note: declared here - 43 | struct NCBI_DEPRECATED CSeqFormatterConfig { - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/seq_writer.hpp:96:85: warning: 'CSeqFormatterConfig' is deprecated [-Wdeprecated-declarations] - 96 | void DumpAll(CSeqDB& blastdb, CSeqFormatterConfig config = CSeqFormatterConfig()); - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/seq_writer.hpp:43:24: note: declared here - 43 | struct NCBI_DEPRECATED CSeqFormatterConfig { - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/seq_writer.hpp:85:68: warning: 'CSeqFormatterConfig' is deprecated [-Wdeprecated-declarations] - 85 | CSeqFormatterConfig config = CSeqFormatterConfig()); - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/seq_writer.hpp:43:24: note: declared here - 43 | struct NCBI_DEPRECATED CSeqFormatterConfig { - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/seq_writer.hpp:96:84: warning: 'CSeqFormatterConfig' is deprecated [-Wdeprecated-declarations] - 96 | void DumpAll(CSeqDB& blastdb, CSeqFormatterConfig config = CSeqFormatterConfig()); - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/seq_writer.hpp:43:24: note: declared here - 43 | struct NCBI_DEPRECATED CSeqFormatterConfig { - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/seq_writer.cpp:49:74: warning: 'CSeqFormatterConfig' is deprecated [-Wdeprecated-declarations] - 49 | CSeqFormatterConfig config /* = CSeqFormatterConfig() */) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/seq_writer.hpp:43:24: note: declared here - 43 | struct NCBI_DEPRECATED CSeqFormatterConfig { - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex_factory.cpp: In member function 'void ncbi::blastdbindex::COffsetData_Factory::Save(ncbi::CNcbiOstream&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex_factory.cpp:1409:10: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1409 | std::auto_ptr< CNcbiOfstream > stats; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex_factory.cpp: In static member function 'static void ncbi::blastdbindex::CDbIndex_Factory::do_create_1_2(ncbi::blastdbindex::CSequenceIStream&, const std::string&, ncbi::blastdbindex::CDbIndex::TSeqNum, ncbi::blastdbindex::CDbIndex::TSeqNum, ncbi::blastdbindex::CDbIndex::TSeqNum&, ncbi::blastdbindex::CDbIndex::TSeqNum&, const ncbi::blastdbindex::CDbIndex::SOptions&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex_factory.cpp:1665:10: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1665 | std::auto_ptr< COffsetList::CDataPool > pool( - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/field_handler.cpp:43: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/seq_writer.cpp:270:72: warning: 'CSeqFormatterConfig' is deprecated [-Wdeprecated-declarations] - 270 | void CSeqFormatter::DumpAll(CSeqDB& blastdb, CSeqFormatterConfig config) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/seq_writer.hpp:43:24: note: declared here - 43 | struct NCBI_DEPRECATED CSeqFormatterConfig { - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmap.cpp: In member function 'ncbi::objects::CAlnMap::TSegTypeFlags ncbi::objects::CAlnMap::x_SetRawSegType(TNumrow, TNumseg) const': +ly_object.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/string_constraint.cpp -o string_constraint.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seqid_guesser.cpp -o seqid_guesser.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/dblink_field.cpp -o dblink_field.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/struc_comm_field.cpp -o struc_comm_field.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/text_desc_field.cpp -o text_desc_field.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/gb_block_field.cpp -o gb_block_field.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmap.cpp: In member function 'ncbi::objects::CAlnMap::TSegTypeFlags ncbi::objects::CAlnMap::x_SetRawSegType(TNumrow, TNumseg) const': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmap.cpp:152:45: warning: 'l_anchor_index' may be used uninitialized [-Wmaybe-uninitialized] 152 | anchor_start = m_Starts[anchor_index]; | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmap.cpp:129:19: note: 'l_anchor_index' was declared here 129 | TNumseg l_anchor_index, r_anchor_index, anchor_index; | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader_snp.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/processor.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/dispatcher.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/reader_cache.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:103:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 103 | auto_ptr m_Indices; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:154:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 154 | auto_ptr m_Indices; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp:57: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/demo' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=seqdb_demo /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/demo/seqdb_demo.cpp -o seqdb_demo.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie seqdb_demo.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lseqdb -lxobjutil -lblastdb -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o seqdb_demo -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f seqdb_demo /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f seqdb_demo /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/seqdb_demo -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/demo' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, @@ -31755,47 +32326,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/demo' -cd objtools/data_loaders/blastdb/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=ncbi_xloader_blastdb_rmt UNIX_PROJ="" sources= configurables=configurables.null -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp: In member function 'void ncbi::objects::edit::{anonymous}::CSeqdescSortMap::Init()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp:173:47: warning: comparison of integer expressions of different signedness: 'char' and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] - 173 | if (descr_insert_order[index] >= size()) - | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/request_result.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/writer.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/cache/writer_cache.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/writer_cache.cpp:31: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/writer.hpp:34: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' ble-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/seqmasks_io/mask_writer_int.cpp -o mask_writer_int.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/seqmasks_io/mask_writer_tab.cpp -o mask_writer_tab.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/seqmasks_io/mask_writer_seqloc.cpp -o mask_writer_seqloc.o @@ -31806,90 +32336,10 @@ /bin/ln -f libseqmasks_io.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libseqmasks_io.so /bin/ln -f .seqmasks_io.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.seqmasks_io.dep make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/seqmasks_io' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnseq.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnsegments.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnsegments.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/seqmasks_io' -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnsegments.hpp:37: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ cd algo/winmask/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=xalgowinmask UNIX_PROJ="" sources= configurables=configurables.null -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/blastdb TMPL=ncbi_xloader_blastdb_rmt -w -j12 --jobserver-auth=7,8 all make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/winmask' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp: In function 'void ncbi::objects::edit::ConvertRawToDeltaByNs(ncbi::objects::CSeq_inst&, size_t, int, size_t, int, bool, int, int, int)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp:1854:71: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long unsigned int'} and 'int' [-Wsign-compare] - 1854 | if (n_len >= min_unknown && (max_unknown < 0 || n_len <= max_unknown)) { - | ~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp:1856:74: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long unsigned int'} and 'int' [-Wsign-compare] - 1856 | } else if (n_len >= min_known && (max_known < 0 || n_len <= max_known)) { - | ~~~~~~^~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp:1879:63: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long unsigned int'} and 'int' [-Wsign-compare] - 1879 | if (n_len >= min_unknown && (max_unknown < 0 || n_len <= max_unknown)) { - | ~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp:1881:66: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long unsigned int'} and 'int' [-Wsign-compare] - 1881 | } else if (n_len >= min_known && (max_known < 0 || n_len <= max_known)) { - | ~~~~~~^~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp: In function 'void ncbi::objects::edit::TrimSeqData(ncbi::objects::CBioseq_Handle, ncbi::CRef, const TCuts&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp:2481:16: warning: enumeration value 'eSeqSubMap' not handled in switch [-Wswitch] - 2481 | switch (seqmap_ci.GetType()) { - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp:2481:16: warning: enumeration value 'eSeqRef' not handled in switch [-Wswitch] -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp:2481:16: warning: enumeration value 'eSeqEnd' not handled in switch [-Wswitch] -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp:2481:16: warning: enumeration value 'eSeqChunk' not handled in switch [-Wswitch] -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp:2481:16: warning: enumeration value 'eSeqLiteral' not handled in switch [-Wswitch] -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp: In function 'bool ncbi::objects::edit::s_FindSegment(const ncbi::objects::CDense_seg&, ncbi::objects::CDense_seg_Base::TDim, ncbi::TSeqPos, ncbi::objects::CDense_seg_Base::TNumseg&, ncbi::TSeqPos&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp:2839:21: warning: comparison of integer expressions of different signedness: 'ncbi::TSeqPos' {aka 'unsigned int'} and 'ncbi::TSignedSeqPos' {aka 'int'} [-Wsign-compare] - 2839 | if (pos >= start && pos < start + len) { - | ~~~~^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp:2839:39: warning: comparison of integer expressions of different signedness: 'ncbi::TSeqPos' {aka 'unsigned int'} and 'ncbi::TSignedSeqPos' {aka 'int'} [-Wsign-compare] - 2839 | if (pos >= start && pos < start + len) { - | ~~~~^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp: In function 'void ncbi::objects::edit::TrimSeqAlign(ncbi::objects::CBioseq_Handle, ncbi::CRef, const TCuts&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp:3043:32: warning: comparison of integer expressions of different signedness: 'ncbi::TSignedSeqPos' {aka 'int'} and 'ncbi::TSeqPos' {aka 'unsigned int'} [-Wsign-compare] - 3043 | else if (seg_start < cut_from) { - | ~~~~~~~~~~^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp:3046:32: warning: comparison of integer expressions of different signedness: 'ncbi::TSignedSeqPos' {aka 'int'} and 'ncbi::TSeqPos' {aka 'unsigned int'} [-Wsign-compare] - 3046 | else if (seg_start >= cut_from && - | ~~~~~~~~~~^~~~~~~~~~~ -make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/winmask' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/winmask' @@ -31897,33 +32347,6 @@ make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/winmask' /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask TMPL=xalgowinmask -w -j12 --jobserver-auth=7,8 all -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/reader_cache.cpp: In function 'ncbi::objects::SCacheInfo::TParams* ncbi::objects::GetCacheParams(const SCacheInfo::TParams*, SCacheInfo::EReaderOrWriter, SCacheInfo::EIdOrBlob)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/reader_cache.cpp:1647:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1647 | auto_ptr section - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/reader_cache.cpp: In static member function 'static ncbi::ICache* ncbi::objects::SCacheInfo::CreateCache(const TParams*, EReaderOrWriter, EIdOrBlob)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/reader_cache.cpp:1676:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1676 | auto_ptr cache_params - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/reader_cache.cpp: In member function 'virtual void ncbi::objects::CCacheReader::InitializeCache(ncbi::objects::CReaderCacheManager&, const ncbi::TPluginManagerParamTree*)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/reader_cache.cpp:1696:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1696 | auto_ptr id_params - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/reader_cache.cpp:1698:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1698 | auto_ptr blob_params - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/winmask' /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker.cpp -o seq_masker.o @@ -31937,34 +32360,11 @@ /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_window_pattern_ambig.cpp -o seq_masker_window_pattern_ambig.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_ostat_factory.cpp -o seq_masker_ostat_factory.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_ostat.cpp -o seq_masker_ostat.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /buildIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnseq.cpp:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnseq.hpp:216:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 216 | auto_ptr m_Starts; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader_snp.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/processor.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/dispatcher.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/writer_cache.cpp:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:103:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 103 | auto_ptr m_Indices; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:154:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 154 | auto_ptr m_Indices; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_version.hpp:33, +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /buildIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_version.hpp:33, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:42, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_score.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_score_min.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_score_min.cpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_score_mean.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker.cpp:41: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -32055,6 +32455,7 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnseq.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnseq.hpp:216:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 216 | auto_ptr m_Starts; | ^~~~~~~~ @@ -32063,7 +32464,8 @@ | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_version.hpp:33, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_ostat.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_ostat.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_ostat_ascii.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_ostat_ascii.cpp:37: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -32155,10 +32557,9 @@ 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_version.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_score.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_score_mean.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker.cpp:41: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_ostat.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_ostat_ascii.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_ostat_factory.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -32250,10 +32651,8 @@ 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_version.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_score.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_score_mean.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_score_mean.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_ostat.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_ostat.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -32345,9 +32744,10 @@ 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_version.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_ostat.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_ostat_ascii.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_ostat_factory.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_score.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_score_mean.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_score_mean.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -32439,9 +32839,10 @@ 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_version.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_ostat.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_ostat_ascii.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_ostat_ascii.cpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_score.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_score_mean_glob.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_score_mean_glob.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -32478,6 +32879,14 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_version.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_score.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_score_min.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_score_min.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -32532,14 +32941,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_version.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_score.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_score_mean_glob.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_score_mean_glob.cpp:34: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ @@ -32627,35 +33028,118 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/writer_cache.cpp: In member function 'virtual void ncbi::objects::CCacheWriter::InitializeCache(ncbi::objects::CReaderCacheManager&, const ncbi::TPluginManagerParamTree*)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/writer_cache.cpp:66:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 66 | auto_ptr id_params +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/test/seqdb_perf.cpp: In member function 'void CSeqDBPerfApp::x_UpdateMemoryUsage(int)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/test/seqdb_perf.cpp:114:23: warning: 'bool ncbi::GetMemoryUsage(size_t*, size_t*, size_t*)' is deprecated [-Wdeprecated-declarations] + 114 | if (GetMemoryUsage(&mu.total, &mu.resident, &mu.shared)) { + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/test/seqdb_perf.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_system.hpp:511:13: note: declared here + 511 | extern bool GetMemoryUsage(size_t* total, size_t* resident, size_t* shared); + | ^~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/test/seqdb_perf.cpp: In member function 'int CSeqDBPerfApp::x_ScanDatabase()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/test/seqdb_perf.cpp:153:31: warning: comparison of integer expressions of different signedness: 'ssize_t' {aka 'long int'} and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] + 153 | for (ssize_t i = 0; i < oids2iterate.size(); i++) { + | ~~^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/test/seqdb_perf.cpp: In member function 'virtual void CSeqDBPerfApp::Init()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/test/seqdb_perf.cpp:285:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 285 | auto_ptr arg_desc(new CArgDescriptions); | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/writer_cache.cpp:68:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 68 | auto_ptr blob_params +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/writer_cache.cpp: In member function 'void ncbi::objects::CCacheWriter::WriteSeq_ids(const std::string&, const ncbi::objects::CLoadLockSeqIds&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/writer_cache.cpp:336:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 336 | auto_ptr writer - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp: In member function 'void ncbi::objects::edit::{anonymous}::CSeqdescSortMap::Init()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp:173:47: warning: comparison of integer expressions of different signedness: 'char' and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] + 173 | if (descr_insert_order[index] >= size()) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnseq.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnsegments.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnsegments.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnsegments.hpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/writer_cache.cpp: At global scope: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/writer_cache.cpp:532:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 532 | auto_ptr m_Writer; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/writer_cache.cpp:533:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 533 | auto_ptr m_Stream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp: In function 'void ncbi::objects::edit::ConvertRawToDeltaByNs(ncbi::objects::CSeq_inst&, size_t, int, size_t, int, bool, int, int, int)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp:1854:71: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long unsigned int'} and 'int' [-Wsign-compare] + 1854 | if (n_len >= min_unknown && (max_unknown < 0 || n_len <= max_unknown)) { + | ~~~~~~^~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp:1856:74: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long unsigned int'} and 'int' [-Wsign-compare] + 1856 | } else if (n_len >= min_known && (max_known < 0 || n_len <= max_known)) { + | ~~~~~~^~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp:1879:63: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long unsigned int'} and 'int' [-Wsign-compare] + 1879 | if (n_len >= min_unknown && (max_unknown < 0 || n_len <= max_unknown)) { + | ~~~~~~^~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp:1881:66: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long unsigned int'} and 'int' [-Wsign-compare] + 1881 | } else if (n_len >= min_known && (max_known < 0 || n_len <= max_known)) { + | ~~~~~~^~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp: In function 'void ncbi::objects::edit::TrimSeqData(ncbi::objects::CBioseq_Handle, ncbi::CRef, const TCuts&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp:2481:16: warning: enumeration value 'eSeqSubMap' not handled in switch [-Wswitch] + 2481 | switch (seqmap_ci.GetType()) { + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp:2481:16: warning: enumeration value 'eSeqRef' not handled in switch [-Wswitch] +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp:2481:16: warning: enumeration value 'eSeqEnd' not handled in switch [-Wswitch] +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp:2481:16: warning: enumeration value 'eSeqChunk' not handled in switch [-Wswitch] +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp:2481:16: warning: enumeration value 'eSeqLiteral' not handled in switch [-Wswitch] +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp: In function 'bool ncbi::objects::edit::s_FindSegment(const ncbi::objects::CDense_seg&, ncbi::objects::CDense_seg_Base::TDim, ncbi::TSeqPos, ncbi::objects::CDense_seg_Base::TNumseg&, ncbi::TSeqPos&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp:2839:21: warning: comparison of integer expressions of different signedness: 'ncbi::TSeqPos' {aka 'unsigned int'} and 'ncbi::TSignedSeqPos' {aka 'int'} [-Wsign-compare] + 2839 | if (pos >= start && pos < start + len) { + | ~~~~^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp:2839:39: warning: comparison of integer expressions of different signedness: 'ncbi::TSeqPos' {aka 'unsigned int'} and 'ncbi::TSignedSeqPos' {aka 'int'} [-Wsign-compare] + 2839 | if (pos >= start && pos < start + len) { + | ~~~~^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp: In function 'void ncbi::objects::edit::TrimSeqAlign(ncbi::objects::CBioseq_Handle, ncbi::CRef, const TCuts&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp:3043:32: warning: comparison of integer expressions of different signedness: 'ncbi::TSignedSeqPos' {aka 'int'} and 'ncbi::TSeqPos' {aka 'unsigned int'} [-Wsign-compare] + 3043 | else if (seg_start < cut_from) { + | ~~~~~~~~~~^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp:3046:32: warning: comparison of integer expressions of different signedness: 'ncbi::TSignedSeqPos' {aka 'int'} and 'ncbi::TSeqPos' {aka 'unsigned int'} [-Wsign-compare] + 3046 | else if (seg_start >= cut_from && + | ~~~~~~~~~~^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnseq.hpp:216:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 216 | auto_ptr m_Starts; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -32664,27 +33148,13 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnsegments.cpp:311:27: warning: suggest parentheses around '&&' within '||' [-Wparentheses] 311 | if (plus && prev_start_plus_len < start || | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/test' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=seqdb_perf /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/test/seqdb_perf.cpp -o seqdb_perf.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie seqdb_perf.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lseqdb -lxobjutil -lblastdb -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -llmdb -lpthread -lm -lpthread -o seqdb_perf -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f seqdb_perf /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f seqdb_perf /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/seqdb_perf -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/test' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/test' -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/link_cds_mrna.cpp -o link_cds_mrna.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/cds_fix.cpp -o cds_fix.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/loc_edit.cpp -o loc_edit.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/mail_report.cpp -o mail_report.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/feattable_edit.cpp -o feattable_edit.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/gaps_edit.cpp -o gaps_edit.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dp/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmerger.cpp: In member function 'void ncbi::objects::CAlnMixMerger::x_Merge()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmerger.cpp:691:40: warning: 'second_row_fits' may be used uninitialized [-Wmaybe-uninitialized] - 691 | second_row_fits != eIgnoreMatch) { - | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmerger.cpp:155:20: note: 'second_row_fits' was declared here - 155 | TSecondRowFits second_row_fits; - | ^~~~~~~~~~~~~~~ -le-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnsegments.cpp -o alnsegments.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dple-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnsegments.cpp -o alnsegments.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnseq.cpp -o alnseq.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnvec.cpp -o alnvec.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnvec_iterator.cpp -o alnvec_iterator.o @@ -32784,24 +33254,37 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/blastdb/bdbloader_rmt.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/blastdb/bdbloader_rmt.cpp:34: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/blastdb/bdbloader_rmt.hpp:38: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id2' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/id2/reader_id2.cpp -o reader_id2.o +/bin/rm -f libncbi_xreader_id2.a .libncbi_xreader_id2.a.stamp +/bin/rm -f libncbi_xreader_id2.so .libncbi_xreader_id2.so.stamp +ar cr libncbi_xreader_id2.a reader_id2.o +/usr/bin/g++ -std=gnu++14 -shared -o libncbi_xreader_id2.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC reader_id2.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lncbi_xreader -lid2 -lxobjmgr -lid1 -lseqedit -lseqsplit -lsubmit -lgenome_collection -lseqset -lseq -lpub -lmedline -lbiblio -lgeneral -lseqcode -lxcompress -lxser -lsequtil -lxconnect -lxutil -lxncbi -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libncbi_xreader_id2.a /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libncbi_xreader_id2.a /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libncbi_xreader_id2.a +/bin/ln -f .ncbi_xreader_id2-static.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.ncbi_xreader_id2-static.dep +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libncbi_xreader_id2.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libncbi_xreader_id2.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libncbi_xreader_id2.so +/bin/ln -f .ncbi_xreader_id2.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.ncbi_xreader_id2.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id2' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id2' +cd objtools/data_loaders/blastdb/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=ncbi_xloader_blastdb_rmt UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/blastdb TMPL=ncbi_xloader_blastdb_rmt -w -j12 --jobserver-auth=7,8 all +make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/seq_loc_util.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/link_cds_mrna.cpp:45: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_explorer.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnvec_iterator.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnvec_iterator.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -32809,10 +33292,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqfeat/RNA_ref_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqfeat/RNA_ref.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/link_cds_mrna.cpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnvec_iterator.cpp:33: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -32828,35 +33308,11 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/request_result.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/reader_id1_base.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/id1/reader_id1.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/id1/reader_id1.cpp:34: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_param.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/id1/reader_id1.cpp:32: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_explorer.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmap.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnvec.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnvec.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_window.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker.cpp:37: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -32864,10 +33320,9 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Dense_seg_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Dense_seg.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmap.hpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_window.hpp:36: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -32883,53 +33338,10 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ - -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/build_db.cpp -o build_db.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/multisource_util.cpp -o multisource_util.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/criteria.cpp -o criteria.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_lmdb.cpp -o writedb_lmdb.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/seqidlist_writer.cpp -o seqidlist_writer.o -/bin/rm -f libwritedb.so .libwritedb.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libwritedb.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC writedb.o writedb_impl.o writedb_volume.o writedb_files.o writedb_isam.o writedb_gimask.o writedb_convert.o writedb_general.o writedb_column.o mask_info_registry.o taxid_set.o build_db.o multisource_util.o criteria.o writedb_lmdb.o seqidlist_writer.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lseqdb -lxobjread -lxobjmgr -lblastdb -lseqset -lseq -lgeneral -lxser -lsequtil -lxutil -lxncbi -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_dIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -iff.sh /bin/ln -f libwritedb.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libwritedb.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libwritedb.so -/bin/ln -f .writedb.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.writedb.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer' -cd algo/blast/unit_tests/seqdb_reader/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=seqdb_lmdb_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -cd algo/blast/unit_tests/seqdb_reader/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=seqdb_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/seqdb_reader' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/seqdb_reader' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/seqdb_reader' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/seqdb_reader' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/seqdb_reader' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/seqdb_reader' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/seqdb_reader' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/seqdb_reader' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/seqdb_reader' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/seqdb_reader' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/seqdb_reader TMPL=seqdb_lmdb_unit_test -w -j12 --jobserver-auth=7,8 all -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/seqdb_reader TMPL=seqdb_unit_test -w -j12 --jobserver-auth=7,8 all In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_explorer.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnvec_iterator.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnvec_iterator.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/seq_loc_util.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/link_cds_mrna.cpp:45: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -32937,7 +33349,10 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnvec_iterator.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqfeat/RNA_ref_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqfeat/RNA_ref.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/link_cds_mrna.cpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -32953,28 +33368,12 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader_snp.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/processor.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/dispatcher.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/id1/reader_id1.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:103:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 103 | auto_ptr m_Indices; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:154:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 154 | auto_ptr m_Indices; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/edit/cds_fix.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/cds_fix.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_window.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_window_ambig.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_window_ambig.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -32982,7 +33381,9 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/cds_fix.cpp:32: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_window.hpp:36: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -32998,9 +33399,34 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/seqdb_reader/seqdb_lmdb_unit_test.cpp:38: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/unit_test/writedb_unit_test.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_reader/seqdbcommon.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_reader/seqdb.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_reader/seqdbexpert.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/unit_test/writedb_unit_test.cpp:35: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmerger.cpp: In member function 'void ncbi::objects::CAlnMixMerger::x_Merge()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmerger.cpp:691:40: warning: 'second_row_fits' may be used uninitialized [-Wmaybe-uninitialized] + 691 | second_row_fits != eIgnoreMatch) { + | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmerger.cpp:155:20: note: 'second_row_fits' was declared here + 155 | TSecondRowFits second_row_fits; + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_version.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat_ascii.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_istat_factory.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -33091,41 +33517,114 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:77: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^~~~~~~~~~~~~~~~~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services/unit_test' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=blast_services_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/services/unit_test/blast_services_test.cpp -o blast_services_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie blast_services_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lblast_services -lxnetblastcli -lxnetblast -lseqdb -lblastdb -lscoremat -lxconnect -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -llmdb -lpthread -lm -lpthread -o blast_services_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blast_services_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f blast_services_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blast_services_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services/unit_test' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services/unit_test' -cd objtools/blast/seqdb_writer/unit_test/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=writedb_lmdb_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test' +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/edit/cds_fix.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/cds_fix.cpp:34: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/cds_fix.cpp:32: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/edit/loc_edit.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/loc_edit.cpp:34: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/loc_edit.cpp:32: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/demo' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=seqdb_demo /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/demo/seqdb_demo.cpp -o seqdb_demo.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie seqdb_demo.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lseqdb -lxobjutil -lblastdb -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o seqdb_demo +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f seqdb_demo /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f seqdb_demo /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/seqdb_demo +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/demo' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:367:10: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 367 | std::auto_ptr< CComponentVersionInfo > fmt_version; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/demo' +cd algo/blast/unit_tests/seqdb_reader/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=seqdb_lmdb_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/seqdb_reader' make[4]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_window.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_window_pattern.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_window_pattern_ambig.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_window_pattern_ambig.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_util.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_window_pattern_ambig.cpp:36: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_explorer.hpp:40, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmap.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnvec.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnvecprint.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnvec.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -33140,6 +33639,13 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/seqdb_reader' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker.cpp: In member function 'ncbi::CSeqMasker::TMaskList* ncbi::CSeqMasker::DoMask(const ncbi::objects::CSeqVector&, ncbi::TSeqPos, ncbi::TSeqPos) const': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker.cpp:166:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 166 | auto_ptr mask(new TMaskList); + | ^~~~~~~~ +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/seqdb_reader' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ @@ -33152,219 +33658,49 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test' -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/seqdb_reader/seqdb_unit_test.cpp:51: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/unit_test TMPL=writedb_lmdb_unit_test -w -j12 --jobserver-auth=7,8 all -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:85: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:77: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^~~~~~~~~~~~~~~~~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker.cpp:171:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 171 | auto_ptr window_ptr + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/seqdb_reader' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_version.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat_ascii.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_istat_factory.cpp:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:85: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/seqdb_reader' +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_window.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_window_pattern.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_window_pattern.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_util.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_window_pattern.cpp:36: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/seqdb_reader TMPL=seqdb_lmdb_unit_test -w -j12 --jobserver-auth=7,8 all +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_version.hpp:33, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_ostat.hpp:42, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_ostat_bin.hpp:39, @@ -33459,29 +33795,14 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnvecprint.cpp: In member function 'void ncbi::objects::CAlnVecPrinter::PopsetStyle(int, EAlgorithm)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnvecprint.cpp:136:64: warning: suggest parentheses around '&&' within '||' [-Wparentheses] - 136 | if (left_seg < 0 || seg > right_seg && right_seg > 0) { - | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnvecprint.cpp: In member function 'void ncbi::objects::CAlnVecPrinter::ClustalStyle(int, EAlgorithm)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnvecprint.cpp:300:64: warning: suggest parentheses around '&&' within '||' [-Wparentheses] - 300 | if (left_seg < 0 || seg > right_seg && right_seg > 0) { - | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ +make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_window.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_score_mean.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/unit_test/writedb_unit_test.cpp:38: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_window.hpp:36: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -33499,7 +33820,7 @@ | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/unit_test/writedb_lmdb_unit_test.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/seqdb_reader/seqdb_lmdb_unit_test.cpp:38: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -33612,7 +33933,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_window.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_score_min.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_score_mean.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -33638,49 +33959,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/request_result.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/reader_id2_base.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/id2/reader_id2.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/id2/reader_id2.cpp:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_param.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/id2/reader_id2.cpp:32: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:367:10: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 367 | std::auto_ptr< CComponentVersionInfo > fmt_version; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:367:10: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 367 | std::auto_ptr< CComponentVersionInfo > fmt_version; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, @@ -33715,36 +33993,6 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_window.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_window_pattern.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_window_pattern.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_util.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_window_pattern.cpp:36: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_window.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:41: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; @@ -33768,48 +34016,22 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/edit/loc_edit.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/loc_edit.cpp:34: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/loc_edit.cpp:32: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/unit_test/writedb_unit_test.cpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/cds_fix.cpp:53: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_window.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker.cpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_score_min.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -33835,18 +34057,24 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:367:10: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 367 | std::auto_ptr< CComponentVersionInfo > fmt_version; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/edit/mail_report.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/mail_report.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_window.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:41: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/mail_report.cpp:32: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat_ascii.hpp:39: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -33862,28 +34090,13 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/parse_text_options.cpp: In function 'ncbi::SIZE_TYPE ncbi::objects::edit::FindWithOptions(const std::string&, const std::string&, ncbi::SIZE_TYPE, bool, bool)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/parse_text_options.cpp:47:25: warning: 'static ncbi::SIZE_TYPE ncbi::NStr::Find(ncbi::CTempString, ncbi::CTempString, ncbi::SIZE_TYPE, ncbi::SIZE_TYPE, EOccurrence, ECase)' is deprecated [-Wdeprecated-declarations] - 47 | pos = NStr::Find(str, pattern, pos, NPOS, NStr::eFirst, str_case); - | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/edit/parse_text_options.hpp:34, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/parse_text_options.cpp:33: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:5344:11: note: declared here - 5344 | SIZE_TYPE NStr::Find(const CTempString str, const CTempString pattern, - | ^~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_window.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_window_ambig.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_window_ambig.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_explorer.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmap.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnvec.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnvecprint.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -33891,15 +34104,10 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_window.hpp:36: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Dense_seg_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Dense_seg.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmap.hpp:36: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -33915,64 +34123,60 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/blastdb/bdbloader_rmt.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_window.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_window_pattern.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_window_pattern_ambig.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_window_pattern_ambig.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/loc_edit.cpp:57: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_util.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_window_pattern_ambig.cpp:36: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/cds_fix.cpp: In function 'bool ncbi::objects::edit::AdjustForCDSPartials(const ncbi::objects::CSeq_feat&, ncbi::objects::CSeq_entry_Handle)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/cds_fix.cpp:457:57: warning: 'bool ncbi::objects::edit::AdjustProteinMolInfoToMatchCDS(ncbi::objects::CMolInfo&, const ncbi::objects::CSeq_feat&)' is deprecated [-Wdeprecated-declarations] - 457 | any_change |= AdjustProteinMolInfoToMatchCDS((*it)->SetMolinfo(), cds); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/cds_fix.cpp:366:6: note: declared here - 366 | bool AdjustProteinMolInfoToMatchCDS(CMolInfo& molinfo, const CSeq_feat& cds) - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/cds_fix.cpp:463:39: warning: 'bool ncbi::objects::edit::AdjustProteinMolInfoToMatchCDS(ncbi::objects::CMolInfo&, const ncbi::objects::CSeq_feat&)' is deprecated [-Wdeprecated-declarations] - 463 | AdjustProteinMolInfoToMatchCDS(new_molinfo_desc->SetMolinfo(), cds); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/cds_fix.cpp:366:6: note: declared here - 366 | bool AdjustProteinMolInfoToMatchCDS(CMolInfo& molinfo, const CSeq_feat& cds) - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnvecprint.cpp: In member function 'void ncbi::objects::CAlnVecPrinter::PopsetStyle(int, EAlgorithm)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnvecprint.cpp:136:64: warning: suggest parentheses around '&&' within '||' [-Wparentheses] + 136 | if (left_seg < 0 || seg > right_seg && right_seg > 0) { + | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnvecprint.cpp: In member function 'void ncbi::objects::CAlnVecPrinter::ClustalStyle(int, EAlgorithm)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnvecprint.cpp:300:64: warning: suggest parentheses around '&&' within '||' [-Wparentheses] + 300 | if (left_seg < 0 || seg > right_seg && right_seg > 0) { + | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:367:10: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 367 | std::auto_ptr< CComponentVersionInfo > fmt_version; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/test' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=seqdb_perf /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/test/seqdb_perf.cpp -o seqdb_perf.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie seqdb_perf.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lseqdb -lxobjutil -lblastdb -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -llmdb -lpthread -lm -lpthread -o seqdb_perf +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f seqdb_perf /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f seqdb_perf /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/seqdb_perf +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/test' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:367:10: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 367 | std::auto_ptr< CComponentVersionInfo > fmt_version; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/test' +cd algo/blast/unit_tests/seqdb_reader/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=seqdb_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/seqdb_reader' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/seqdb_reader' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/seqdb_reader' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/seqdb_reader' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/seqdb_reader' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:367:10: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 367 | std::auto_ptr< CComponentVersionInfo > fmt_version; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/seqdb_reader TMPL=seqdb_unit_test -w -j12 --jobserver-auth=7,8 all +make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/feattable_edit.cpp:44: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; @@ -33988,90 +34192,46 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader_snp.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/processor.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/dispatcher.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/id2/reader_id2.cpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:103:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 103 | auto_ptr m_Indices; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:154:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 154 | auto_ptr m_Indices; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:367:10: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 367 | std::auto_ptr< CComponentVersionInfo > fmt_version; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker.cpp: In member function 'ncbi::CSeqMasker::TMaskList* ncbi::CSeqMasker::DoMask(const ncbi::objects::CSeqVector&, ncbi::TSeqPos, ncbi::TSeqPos) const': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker.cpp:166:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 166 | auto_ptr mask(new TMaskList); - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker.cpp:171:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 171 | auto_ptr window_ptr +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/sparse_aln.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/sparse_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/sparse_ci.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/edit/mail_report.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/mail_report.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbictype.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistre.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_stack.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidbg.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbimisc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/sparse_ci.hpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/mail_report.cpp:32: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/sparse_aln.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/sparse_aln.cpp:34: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/cds_fix.cpp:53: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/sparse_aln.hpp:34: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -34081,35 +34241,65 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -kg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/source_edit.cpp -o source_edit.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/rna_edit.cpp -o rna_edit.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/remote_updater.cpp -o remote_updater.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/parse_text_options.cpp -o parse_text_options.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/publication_edit.cpp -o publication_edit.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/gap_trim.cpp -o gap_trim.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -WerrIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/feattable_edit.cpp:45: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/parse_text_options.cpp: In function 'ncbi::SIZE_TYPE ncbi::objects::edit::FindWithOptions(const std::string&, const std::string&, ncbi::SIZE_TYPE, bool, bool)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/parse_text_options.cpp:47:25: warning: 'static ncbi::SIZE_TYPE ncbi::NStr::Find(ncbi::CTempString, ncbi::CTempString, ncbi::SIZE_TYPE, ncbi::SIZE_TYPE, EOccurrence, ECase)' is deprecated [-Wdeprecated-declarations] + 47 | pos = NStr::Find(str, pattern, pos, NPOS, NStr::eFirst, str_case); + | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/edit/parse_text_options.hpp:34, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/parse_text_options.cpp:33: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:5344:11: note: declared here + 5344 | SIZE_TYPE NStr::Find(const CTempString str, const CTempString pattern, + | ^~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex' +/usr/bin/g++ -std=gnu++14 -c -DDO_INLINE -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/sequence_istream_fasta.cpp -o sequence_istream_fasta.o +/usr/bin/g++ -std=gnu++14 -c -DDO_INLINE -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/sequence_istream_bdb.cpp -o sequence_istream_bdb.o +/usr/bin/g++ -std=gnu++14 -c -DDO_INLINE -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex.cpp -o dbindex.o +/usr/bin/g++ -std=gnu++14 -c -DDO_INLINE -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex_factory.cpp -o dbindex_factory.o +/usr/bin/g++ -std=gnu++14 -c -DDO_INLINE -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex_search.cpp -o dbindex_search.o +/bin/rm -f libxalgoblastdbindex.so .libxalgoblastdbindex.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libxalgoblastdbindex.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC sequence_istream_fasta.o sequence_istream_bdb.o dbindex.o dbindex_factory.o dbindex_search.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c+/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/blastdb/bdbloader_rmt.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/blastdb/bdbloader_rmt.cpp:34: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/blastdb/bdbloader_rmt.hpp:38: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/cds_fix.cpp: In function 'bool ncbi::objects::edit::AdjustForCDSPartials(const ncbi::objects::CSeq_feat&, ncbi::objects::CSeq_entry_Handle)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/cds_fix.cpp:457:57: warning: 'bool ncbi::objects::edit::AdjustProteinMolInfoToMatchCDS(ncbi::objects::CMolInfo&, const ncbi::objects::CSeq_feat&)' is deprecated [-Wdeprecated-declarations] + 457 | any_change |= AdjustProteinMolInfoToMatchCDS((*it)->SetMolinfo(), cds); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/cds_fix.cpp:366:6: note: declared here + 366 | bool AdjustProteinMolInfoToMatchCDS(CMolInfo& molinfo, const CSeq_feat& cds) + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/cds_fix.cpp:463:39: warning: 'bool ncbi::objects::edit::AdjustProteinMolInfoToMatchCDS(ncbi::objects::CMolInfo&, const ncbi::objects::CSeq_feat&)' is deprecated [-Wdeprecated-declarations] + 463 | AdjustProteinMolInfoToMatchCDS(new_molinfo_desc->SetMolinfo(), cds); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/cds_fix.cpp:366:6: note: declared here + 366 | bool AdjustProteinMolInfoToMatchCDS(CMolInfo& molinfo, const CSeq_feat& cds) + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/external_annots.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/seqdb_reader/seqdb_unit_test.cpp:51: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -34218,62 +34408,36 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/edit/source_edit.hpp:34, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/source_edit.cpp:34: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/source_edit.cpp:32: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ ++/BUILD/lib -lblast -lseqdb -lxobjread -lxobjutil -lxobjmgr -lseqset -lseq -lxser -lxutil -lxncbi -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libxalgoblastdbindex.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libxalgoblastdbindex.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libxalgoblastdbindex.so +/bin/ln -f .xalgoblastdbindex.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.xalgoblastdbindex.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex' /reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_ostat_ascii.cpp -o seq_masker_ostat_ascii.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_istat_ascii.cpp -o seq_masker_istat_ascii.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_uset_simple.cpp -o seq_masker_uset_simple.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_istat_factory.cpp -o seq_masker_istat_factory.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_ostat_bin.cpp -o seq_masker_ostat_bin.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_uset_array.cpp -o seq_masker_uset_array.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/cmake[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex' -/usr/bin/g++ -std=gnu++14 -c -DDO_INLINE -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/sequence_istream_fasta.cpp -o sequence_istream_fasta.o -/usr/bin/g++ -std=gnu++14 -c -DDO_INLINE -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/sequence_istream_bdb.cpp -o sequence_istream_bdb.o -/usr/bin/g++ -std=gnu++14 -c -DDO_INLINE -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex.cpp -o dbindex.o -/usr/bin/g++ -std=gnu++14 -c -DDO_INLINE -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex_factory.cpp -o dbindex_factory.o -/usr/bin/g++ -std=gnu++14 -c -DDO_INLINE -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex_search.cpp -o dbindex_search.o -/bin/rm -f libxalgoblastdbindex.so .libxalgoblastdbindex.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libxalgoblastdbindex.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC sequence_istream_fasta.o sequence_istream_bdb.o dbindex.o dbindex_factory.o dbindex_search.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c+In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/cmake[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex' +cd algo/blast/dbindex/makeindex/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=makeindex LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex/makeindex' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/edit/string_constraint.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/edit/seqid_guesser.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/rna_edit.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/feattable_edit.cpp:45: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/rna_edit.cpp:32: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex/makeindex' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex/makeindex' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex/makeindex' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex/makeindex' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ @@ -34286,6 +34450,8 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/makeindex TMPL=makeindex -w -j12 --jobserver-auth=7,8 all +make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_version.hpp:33, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_ostat.hpp:42, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_ostat_opt.hpp:40, @@ -34380,43 +34546,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_window.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat_ascii.hpp:39: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/loc_edit.cpp:57: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_version.hpp:33, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_ostat.hpp:42, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_ostat_opt.hpp:40, @@ -34606,34 +34735,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:367:10: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 367 | std::auto_ptr< CComponentVersionInfo > fmt_version; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_istat_bin.cpp -o seq_masker_istat_bin.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_ostat_opt.cpp -o seq_masker_ostat_opt.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_ostat_opt_ascii.cpp -o seq_masker_ostat_opt_ascii.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_uset_hash.cpp -o seq_masker_uset_hash.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_istat_oascii.cpp -o seq_masker_istat_oascii.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_ostat_opt_bin.cpp -o seq_masker_ostat_opt_bin.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/nIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_version.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat_oascii.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_istat_oascii.cpp:38: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/makeindex/mkindex_app.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/makeindex/mkindex_app.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -34724,11 +34828,33 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_version.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_ostat.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_ostat_opt.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_ostat_opt_bin.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_ostat_opt_bin.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:77: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^~~~~~~~~~~~~~~~~~~~~~~ +kg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/source_edit.cpp -o source_edit.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/rna_edit.cpp -o rna_edit.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/remote_updater.cpp -o remote_updater.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/parse_text_options.cpp -o parse_text_options.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/publication_edit.cpp -o publication_edit.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/gap_trim.cpp -o gap_trim.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -WerrIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/makeindex/mkindex_app.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/makeindex/main.cpp:47: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -34819,52 +34945,33 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/rna_edit.cpp: In member function 'bool ncbi::objects::edit::CFindITSParser::IsLengthTooLarge(const std::string&, int, int, const std::vector&, const std::vector&, const std::vector&, int)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/rna_edit.cpp:259:31: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] - 259 | for (int j = i + 1; j < spans.size(); j++) - | ~~^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/feattable_edit.cpp:47: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/sparse_aln.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/mail_report.cpp:49: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:77: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/unit_test/writedb_unit_test.cpp: In function 'ncbi::CRef s_GetScope()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/unit_test/writedb_unit_test.cpp:558:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 558 | auto_ptr ois | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -+/BUILD/lib -lblast -lseqdb -lxobjread -lxobjutil -lxobjmgr -lseqset -lseq -lxser -lxutil -lxncbi -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libxalgoblastdbindex.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libxalgoblastdbindex.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libxalgoblastdbindex.so -/bin/ln -f .xalgoblastdbindex.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.xalgoblastdbindex.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex' -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_version.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat_obinary.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_istat_obinary.cpp:38: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/external_annots.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -34955,10 +35062,29 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:77: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_version.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_cache_boost.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_cache_boost.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_ostat.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_ostat_opt.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_ostat_opt_bin.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_ostat_opt_bin.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -35049,49 +35175,10 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^~~~~~~~~~~~~~~~~~~~~~~ -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -cd objtools/blast/seqdb_writer/unit_test/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=writedb_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/sparse_aln.cpp: In member function 'std::string& ncbi::CSparseAln::GetAlnSeqString(ncbi::IAlnExplorer::TNumrow, std::string&, const ncbi::IAlnExplorer::TSignedRange&, bool) const': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/sparse_aln.cpp:702:46: warning: comparison of integer expressions of different signedness: 'ncbi::COpenRange::position_type' {aka 'int'} and 'size_t' {aka 'long unsigned int'} [-Wsign-compare] - 702 | if (translate && aln_range.GetLength() >= trim_from + trim_to) { - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/unit_test TMPL=writedb_unit_test -w -j12 --jobserver-auth=7,8 all -make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_version.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_ostat.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_counts_converter.cpp:40: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat_oascii.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_istat_oascii.cpp:38: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -35182,19 +35269,42 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/remote_updater.cpp:59: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/edit/remote_updater.hpp:129:4: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 129 | auto_ptr m_taxClient; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqfeat/Org_ref_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqfeat/Org_ref.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/taxon3/itaxon3.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/taxon3/taxon3.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/remote_updater.cpp:36: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/unit_test/writedb_unit_test.cpp: In member function 'void writedb::CBuildDatabase_WGS_gap::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/unit_test/writedb_unit_test.cpp:2825:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 2825 | auto_ptr ois + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_window.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:41: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/sparse_aln.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/sparse_aln.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat_factory.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_istat_factory.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/sparse_aln.hpp:34: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -35210,8 +35320,88 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/unit_test/criteria_unit_test.cpp:37: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/edit/source_edit.hpp:34, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/source_edit.cpp:34: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/source_edit.cpp:32: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/remote_updater.cpp:292:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 292 | auto_ptr m_taxon; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/remote_updater.cpp:293:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 293 | auto_ptr m_cache; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_istat_bin.cpp -o seq_masker_istat_bin.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_ostat_opt.cpp -o seq_masker_ostat_opt.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_ostat_opt_ascii.cpp -o seq_masker_ostat_opt_ascii.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_uset_hash.cpp -o seq_masker_uset_hash.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_istat_oascii.cpp -o seq_masker_istat_oascii.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_ostat_opt_bin.cpp -o seq_masker_ostat_opt_bin.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/nIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/feattable_edit.cpp:47: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/remote_updater.cpp: In member function 'void ncbi::objects::edit::CRemoteUpdater::UpdateOrgFromTaxon(FLogger, ncbi::objects::CSeq_entry_EditHandle&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/remote_updater.cpp:604:31: warning: 'void ncbi::objects::edit::CRemoteUpdater::UpdateOrgFromTaxon(FLogger, ncbi::objects::CSeqdesc&)' is deprecated [-Wdeprecated-declarations] + 604 | UpdateOrgFromTaxon(logger, (CSeqdesc&)*desc_it); + | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/remote_updater.cpp:296:6: note: declared here + 296 | void CRemoteUpdater::UpdateOrgFromTaxon(FLogger logger, CSeqdesc& obj) + | ^~~~~~~~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id1' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/id1/reader_id1.cpp -o reader_id1.o +/bin/rm -f libncbi_xreader_id1.a .libncbi_xreader_id1.a.stamp +ar cr libncbi_xreader_id1.a reader_id1.o +/bin/rm -f libncbi_xreader_id1.so .libncbi_xreader_id1.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libncbi_xreader_id1.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC reader_id1.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lncbi_xreader -lid2 -lxobjmgr -lid1 -lseqedit -lseqsplit -lsubmit -lgenome_collection -lseqset -lseq -lpub -lmedline -lbiblio -lgeneral -lseqcode -lxcompress -lxser -lsequtil -lxconnect -lxutil -lxncbi -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libncbi_xreader_id1.a /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libncbi_xreader_id1.a /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libncbi_xreader_id1.a +/bin/ln -f .ncbi_xreader_id1-static.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.ncbi_xreader_id1-static.dep +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libncbi_xreader_id1.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libncbi_xreader_id1.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libncbi_xreader_id1.so +/bin/ln -f .ncbi_xreader_id1.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.ncbi_xreader_id1.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id1' +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_version.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat_obinary.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_istat_obinary.cpp:38: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -35302,60 +35492,11 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:77: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_explorer.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmap.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnvec.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/score_builder_base.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/score_builder_base.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/score_builder_base.cpp:33: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/unit_test/writedb_unit_test.cpp:46: +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id1' +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_version.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_cache_boost.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_cache_boost.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -35446,78 +35587,22 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:77: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/remote_updater.cpp:59: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/edit/remote_updater.hpp:129:4: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 129 | auto_ptr m_taxClient; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqfeat/Org_ref_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqfeat/Org_ref.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/taxon3/itaxon3.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/taxon3/taxon3.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/remote_updater.cpp:36: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/remote_updater.cpp:292:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 292 | auto_ptr m_taxon; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/remote_updater.cpp:293:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 293 | auto_ptr m_cache; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:367:10: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 367 | std::auto_ptr< CComponentVersionInfo > fmt_version; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/remote_updater.cpp: In member function 'void ncbi::objects::edit::CRemoteUpdater::UpdateOrgFromTaxon(FLogger, ncbi::objects::CSeq_entry_EditHandle&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/remote_updater.cpp:604:31: warning: 'void ncbi::objects::edit::CRemoteUpdater::UpdateOrgFromTaxon(FLogger, ncbi::objects::CSeqdesc&)' is deprecated [-Wdeprecated-declarations] - 604 | UpdateOrgFromTaxon(logger, (CSeqdesc&)*desc_it); - | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/remote_updater.cpp:296:6: note: declared here - 296 | void CRemoteUpdater::UpdateOrgFromTaxon(FLogger logger, CSeqdesc& obj) - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/edit/gap_trim.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/gap_trim.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/sparse_aln.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/sparse_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/sparse_ci.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/gap_trim.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbictype.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistre.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_stack.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidbg.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbimisc.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/sparse_ci.hpp:35: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -35535,8 +35620,7 @@ | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_version.hpp:33, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_ostat.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/win_mask_gen_counts.hpp:50, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_gen_counts.cpp:53: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_counts_converter.cpp:40: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -35594,6 +35678,14 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/blastdb/bdbloader_rmt.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ @@ -35627,30 +35719,11 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/score_builder_base.cpp:57: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/gap_trim.cpp:44: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/seq_loc_util.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alntext.cpp:40: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/edit/string_constraint.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/edit/seqid_guesser.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/rna_edit.cpp:33: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -35658,18 +35731,16 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alntext.cpp:34: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/rna_edit.cpp:32: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/mail_report.cpp:49: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -35698,84 +35769,35 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/external_annots.cpp:42: +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=writedb_lmdb_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/unit_test/writedb_lmdb_unit_test.cpp -o writedb_lmdb_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie writedb_lmdb_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lwritedb -lseqdb -lxobjread -lvariation -lsubmit -lxlogging -lxobjutil -lblastdb -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o writedb_lmdb_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f writedb_lmdb_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f writedb_lmdb_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/writedb_lmdb_unit_test +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test' +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/sparse_aln.cpp:38: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/edit/external_annots.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/external_annots.cpp:34: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -cbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_istat_obinary.cpp -o seq_masker_istat_obinary.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_cache_boost.cpp -o seq_masker_cache_boost.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_counts_converter.cpp -o win_mask_counts_converter.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_dup_table.cpp -o win_mask_dup_table.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_gen_counts.cpp -o win_mask_gen_counts.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_util.cpp -o win_mask_util.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/seqdb_reader/seqdb_unit_test.cpp:42: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_reader/seqdbcommon.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_reader/seqdb.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_reader/seqdbexpert.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/seqdb_reader/seqdb_unit_test.cpp:34: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_window.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat_oascii.hpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format' /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/seq_writer.cpp -o seq_writer.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/blastdb_dataextract.cpp -o blastdb_dataextract.o @@ -35787,9 +35809,26 @@ /bin/ln -f libblastdb_format.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libblastdb_format.so /bin/ln -f .blastdb_format.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.blastdb_format.dep make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format' +cd objtools/blast/blastdb_format/unit_test/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=blastdb_format_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format/unit_test' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format/unit_test' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format/unit_test' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format/unit_test' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format/unit_test' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/unit_test TMPL=blastdb_format_unit_test -w -j12 --jobserver-auth=7,8 all +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/sparse_aln.cpp: In member function 'std::string& ncbi::CSparseAln::GetAlnSeqString(ncbi::IAlnExplorer::TNumrow, std::string&, const ncbi::IAlnExplorer::TSignedRange&, bool) const': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/sparse_aln.cpp:702:46: warning: comparison of integer expressions of different signedness: 'ncbi::COpenRange::position_type' {aka 'int'} and 'size_t' {aka 'long unsigned int'} [-Wsign-compare] + 702 | if (translate && aln_range.GetLength() >= trim_from + trim_to) { + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_version.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_istat.cpp:32: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_ostat.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/win_mask_gen_counts.hpp:50, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_gen_counts.cpp:53: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -35880,37 +35919,36 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^~~~~~~~~~~~~~~~~~~~~~~ -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format' -cd algo/blast/dbindex/makeindex/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=makeindex LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex/makeindex' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex/makeindex' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex/makeindex' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex/makeindex' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex/makeindex' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/makeindex TMPL=makeindex -w -j12 --jobserver-auth=7,8 all -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alntext.cpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/seq_loc_util.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alntext.cpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alntext.cpp:34: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:367:10: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 367 | std::auto_ptr< CComponentVersionInfo > fmt_version; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/makeindex/mkindex_app.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/makeindex/mkindex_app.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/unit_test/seq_writer_unit_test.cpp:39: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -36019,9 +36057,37 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_window.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat_factory.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_istat_factory.cpp:35: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/makeindex/mkindex_app.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/makeindex/main.cpp:47: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/unit_test/seq_formatter_unit_test.cpp:39: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -36130,37 +36196,49 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/rna_edit.cpp: In member function 'bool ncbi::objects::edit::CFindITSParser::IsLengthTooLarge(const std::string&, int, int, const std::vector&, const std::vector&, const std::vector&, int)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/rna_edit.cpp:259:31: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] + 259 | for (int j = i + 1; j < spans.size(); j++) + | ~~^~~~~~~~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/cache' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/reader_cache.cpp -o reader_cache.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/writer_cache.cpp -o writer_cache.o +/bin/rm -f libncbi_xreader_cache.a .libncbi_xreader_cache.a.stamp +ar cr libncbi_xreader_cache.a reader_cache.o writer_cache.o +/bin/rm -f libncbi_xreader_cache.so .libncbi_xreader_cache.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libncbi_xreader_cache.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC reader_cache.o writer_cache.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lncbi_xreader -lid2 -lxobjmgr -lid1 -lseqedit -lseqsplit -lsubmit -lgenome_collection -lseqset -lseq -lpub -lmedline -lbiblio -lgeneral -lseqcode -lxcompress -lxser -lsequtil -lxconnect -lxutil -lxncbi -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libncbi_xreader_cache.a /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libncbi_xreader_cache.a /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libncbi_xreader_cache.a +/bin/ln -f .ncbi_xreader_cache-static.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.ncbi_xreader_cache-static.dep +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libncbi_xreader_cache.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libncbi_xreader_cache.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libncbi_xreader_cache.so +/bin/ln -f .ncbi_xreader_cache.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.ncbi_xreader_cache.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/cache' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_window.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/win_mask_counts_converter.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_counts_converter.cpp:42: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_explorer.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmap.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnvec.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/score_builder_base.cpp:38: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_util.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_counts_converter.cpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/score_builder_base.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/score_builder_base.cpp:33: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +cd objtools/data_loaders/genbank/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=ncbi_xloader_genbank UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ @@ -36175,25 +36253,25 @@ | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alntext.cpp:41: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_gen_counts.cpp:45: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Bioseq_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Bioseq.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_gen_counts.cpp:39: +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank TMPL=ncbi_xloader_genbank -w -j12 --jobserver-auth=7,8 all +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:367:10: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 367 | std::auto_ptr< CComponentVersionInfo > fmt_version; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -36221,51 +36299,6 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_cache_boost.hpp:36: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:367:10: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 367 | std::auto_ptr< CComponentVersionInfo > fmt_version; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_window.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/seq_loc_util.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/feature_propagate.cpp:43: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2ast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbitime.hpp:65, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_system.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbifile.hpp:53, @@ -36273,284 +36306,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/feature_propagate.cpp:32: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_window.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat_obinary.hpp:37: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_dup_table.cpp:43: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbictype.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistre.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_dup_table.cpp:39: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/external_annots.cpp:43: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:367:10: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 367 | std::auto_ptr< CComponentVersionInfo > fmt_version; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:367:10: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 367 | std::auto_ptr< CComponentVersionInfo > fmt_version; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:367:10: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 367 | std::auto_ptr< CComponentVersionInfo > fmt_version; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_gen_counts.cpp:46: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/text_object_description.cpp:48: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/text_object_description.cpp:33: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/sparse_aln.hpp:38: -In member function 'ncbi::CAlignRangeCollExtender::position_type ncbi::CAlignRangeCollExtender::GetSecondFrom() const [with TColl = ncbi::CAlignRangeCollectionList >]', - inlined from 'ncbi::CRange ncbi::CAlignRangeCollExtender::GetSecondRange() const [with TColl = ncbi::CAlignRangeCollectionList >]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/util/align_range_coll.hpp:1811:16, - inlined from 'void ncbi::CSparseAln::x_Build(const ncbi::CAnchoredAln&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/sparse_aln.cpp:230:49: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/util/align_range_coll.hpp:1790:16: warning: '*(__vector(2) int*)((char*)&ext + offsetof(ncbi::CAlignRangeCollExtender > >,ncbi::CAlignRangeCollExtender > >::m_From))' may be used uninitialized [-Wmaybe-uninitialized] - 1790 | return m_From; - | ^~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/sparse_aln.cpp: In member function 'void ncbi::CSparseAln::x_Build(const ncbi::CAnchoredAln&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/sparse_aln.cpp:228:46: note: 'ext' declared here - 228 | CAlignRangeCollExtender ext(*m_Aln->GetPairwiseAlns()[row]); - | ^~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/unit_test/writedb_unit_test.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_reader/seqdbcommon.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_reader/seqdb.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_reader/seqdbexpert.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/unit_test/writedb_unit_test.cpp:35: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/edit/feature_propagate.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/feature_propagate.cpp:48: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/cache' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/reader_cache.cpp -o reader_cache.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/writer_cache.cpp -o writer_cache.o -/bin/rm -f libncbi_xreader_cache.a .libncbi_xreader_cache.a.stamp -ar cr libncbi_xreader_cache.a reader_cache.o writer_cache.o -/bin/rm -f libncbi_xreader_cache.so .libncbi_xreader_cache.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libncbi_xreader_cache.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC reader_cache.o writer_cache.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lncbi_xreader -lid2 -lxobjmgr -lid1 -lseqedit -lseqsplit -lsubmit -lgenome_collection -lseqset -lseq -lpub -lmedline -lbiblio -lgeneral -lseqcode -lxcompress -lxser -lsequtil -lxconnect -lxutil -lxncbi -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libncbi_xreader_cache.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libncbi_xreader_cache.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libncbi_xreader_cache.so -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libncbi_xreader_cache.a /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f .ncbi_xreader_cache.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.ncbi_xreader_cache.dep -/bin/ln -f libncbi_xreader_cache.a /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libncbi_xreader_cache.a -/bin/ln -f .ncbi_xreader_cache-static.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.ncbi_xreader_cache-static.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/cache' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/cache' -cd objtools/blast/blastdb_format/unit_test/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=blastdb_format_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format/unit_test' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format/unit_test' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format/unit_test' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format/unit_test' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format/unit_test' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/unit_test TMPL=blastdb_format_unit_test -w -j12 --jobserver-auth=7,8 all -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_util.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:37: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/unit_test/writedb_unit_test.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ @@ -36563,54 +36318,24 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/seqmasks_io/mask_fasta_reader.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/win_mask_gen_counts.hpp:47: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/dbindex/sequence_istream_fasta.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/makeindex/main.cpp:42: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_dup_table.cpp:44: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbictype.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistre.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/dbindex/sequence_istream_fasta.hpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/unit_test/seq_writer_unit_test.cpp:39: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/gbloader.cpp:66: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -36719,21 +36444,8 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/seqmasks_io/mask_fasta_reader.hpp:94:32: warning: 'ncbi::objects::CFastaReader::fAllSeqIds' is deprecated: This flag is no longer used in CFastaReader. [-Wdeprecated-declarations] - 94 | objects::CFastaReader::fAllSeqIds | - | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:92:9: note: declared here - 92 | fAllSeqIds NCBI_STD_DEPRECATED("This flag is no longer used in CFastaReader.") = 1<< 6, ///< Read Seq-ids past the first ^A (see note) - | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/seqmasks_io/mask_fasta_reader.hpp:94:32: warning: 'ncbi::objects::CFastaReader::fAllSeqIds' is deprecated: This flag is no longer used in CFastaReader. [-Wdeprecated-declarations] - 94 | objects::CFastaReader::fAllSeqIds | - | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:92:9: note: declared here - 92 | fAllSeqIds NCBI_STD_DEPRECATED("This flag is no longer used in CFastaReader.") = 1<< 6, ///< Read Seq-ids past the first ^A (see note) - | ^~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/unit_test/seq_formatter_unit_test.cpp:39: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/gbnative.cpp:64: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -36842,82 +36554,205 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id2' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/id2/reader_id2.cpp -o reader_id2.o -/bin/rm -f libncbi_xreader_id2.a .libncbi_xreader_id2.a.stamp -/bin/rm -f libncbi_xreader_id2.so .libncbi_xreader_id2.so.stamp -ar cr libncbi_xreader_id2.a reader_id2.o -/usr/bin/g++ -std=gnu++14 -shared -o libncbi_xreader_id2.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC reader_id2.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lncbi_xreader -lid2 -lxobjmgr -lid1 -lseqedit -lseqsplit -lsubmit -lgenome_collection -lseqset -lseq -lpub -lmedline -lbiblio -lgeneral -lseqcode -lxcompress -lxser -lsequtil -lxconnect -lxutil -lxncbi -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libncbi_xreader_id2.a /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libncbi_xreader_id2.a /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libncbi_xreader_id2.a -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libncbi_xreader_id2.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libncbi_xreader_id2.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libncbi_xreader_id2.so -/bin/ln -f .ncbi_xreader_id2-static.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.ncbi_xreader_id2-static.dep -/bin/ln -f .ncbi_xreader_id2.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.ncbi_xreader_id2.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id2' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id2' -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:367:10: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 367 | std::auto_ptr< CComponentVersionInfo > fmt_version; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +cbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_istat_obinary.cpp -o seq_masker_istat_obinary.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_cache_boost.cpp -o seq_masker_cache_boost.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_counts_converter.cpp -o win_mask_counts_converter.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_dup_table.cpp -o win_mask_dup_table.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_gen_counts.cpp -o win_mask_gen_counts.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_util.cpp -o win_mask_util.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_window.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/win_mask_gen_counts.hpp:51: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/win_mask_util.hpp:188:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 188 | auto_ptr< CNcbiIstream > m_InputFile; // input file - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat_obinary.hpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/win_mask_util.hpp:189:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 189 | auto_ptr< CMaskReader > m_Reader; // reader used for fasta and bdb formats - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/win_mask_util.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/win_mask_config.hpp:46, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_config.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:367:10: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 367 | std::auto_ptr< CComponentVersionInfo > fmt_version; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_version.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_istat.cpp:32: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:85: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_dup_table.cpp:43: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbictype.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistre.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_stack.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidbg.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_config.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_dup_table.cpp:39: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/blastdb/bdbloader_rmt.cpp -o bdbloader_rmt.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/blastdb/remote_blastdb_adapter.cpp -o remote_blastdb_adapter.o -/bin/rm -f libncbi_xloader_blastdb_rmt.so .libncbi_xloader_blastdb_rmt.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libncbi_xloader_blastdb_rmt.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC bdbloader_rmt.o remote_blastdb_adapter.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lncbi_xloader_blastdb -lblast_services -lxobjmgr -lseq -lxncbi -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libncbi_xloader_blastdb_rmt.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libncbi_xloader_blastdb_rmt.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libncbi_xloader_blastdb_rmt.so -/bin/ln -f .ncbi_xloader_blastdb_rmt.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.ncbi_xloader_blastdb_rmt.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/seq_loc_util.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/feature_propagate.cpp:43: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/feature_propagate.cpp:32: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/win_mask_dup_table.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_gen_counts.cpp:54: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/score_builder_base.cpp:57: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/external_annots.cpp:42: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/edit/external_annots.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/external_annots.cpp:34: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 364 | auto_ptr &feat_ci, | ^~~~~~~~ @@ -36930,30 +36765,147 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_window.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_cache_boost.hpp:36: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/unit_test/writedb_unit_test.cpp:39: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/dbindex/sequence_istream_fasta.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/makeindex/mkindex_app.cpp:49: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_util.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/win_mask_util.hpp:188:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 188 | auto_ptr< CNcbiIstream > m_InputFile; // input file - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/edit/gap_trim.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/gap_trim.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/gap_trim.cpp:34: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/win_mask_util.hpp:189:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 189 | auto_ptr< CMaskReader > m_Reader; // reader used for fasta and bdb formats +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_gen_counts.cpp:45: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Bioseq_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Bioseq.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_gen_counts.cpp:39: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/edit/feature_propagate.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/feature_propagate.cpp:48: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:367:10: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 367 | std::auto_ptr< CComponentVersionInfo > fmt_version; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/gbnative.hpp:48, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/gbnative.cpp:34: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_param.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/gbnative.cpp:33: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, @@ -36965,7 +36917,7 @@ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat_oascii.hpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -36981,44 +36933,55 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_dup_table.cpp:48: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/makeindex/mkindex_app.cpp: In member function 'virtual void ncbi::CMkIndexApplication::Init()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/makeindex/mkindex_app.cpp:67:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 67 | auto_ptr< CArgDescriptions > arg_desc( new CArgDescriptions ); + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/gbloader.hpp:48, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/gbloader.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_param.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/gbloader.cpp:34: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/win_mask_dup_table.hpp:46, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_dup_table.cpp:50: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/win_mask_util.hpp:188:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 188 | auto_ptr< CNcbiIstream > m_InputFile; // input file - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/text_object_description.cpp:48: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/text_object_description.cpp:33: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/win_mask_util.hpp:189:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 189 | auto_ptr< CMaskReader > m_Reader; // reader used for fasta and bdb formats - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/text_object_description.cpp:336:15: warning: 'std::string ncbi::objects::edit::GetTextObjectDescription(const ncbi::objects::CSeq_feat&, ncbi::objects::CScope&, const std::string&)' defined but not used [-Wunused-function] - 336 | static string GetTextObjectDescription(const CSeq_feat& seq_feat, CScope& scope, const string& product) - | ^~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/seqmasks_io/mask_fasta_reader.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_util.cpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -37029,21 +36992,9 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/seqmasks_io/mask_fasta_reader.hpp:94:32: warning: 'ncbi::objects::CFastaReader::fAllSeqIds' is deprecated: This flag is no longer used in CFastaReader. [-Wdeprecated-declarations] - 94 | objects::CFastaReader::fAllSeqIds | - | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:92:9: note: declared here - 92 | fAllSeqIds NCBI_STD_DEPRECATED("This flag is no longer used in CFastaReader.") = 1<< 6, ///< Read Seq-ids past the first ^A (see note) - | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/seqmasks_io/mask_fasta_reader.hpp:94:32: warning: 'ncbi::objects::CFastaReader::fAllSeqIds' is deprecated: This flag is no longer used in CFastaReader. [-Wdeprecated-declarations] - 94 | objects::CFastaReader::fAllSeqIds | - | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:92:9: note: declared here - 92 | fAllSeqIds NCBI_STD_DEPRECATED("This flag is no longer used in CFastaReader.") = 1<< 6, ///< Read Seq-ids past the first ^A (see note) - | ^~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/win_mask_util.hpp:40: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_dup_table.cpp:44: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -37062,53 +37013,62 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_util.cpp: In member function 'virtual bool ncbi::CWinMaskUtil::CIdSet_TextMatch::find(const ncbi::objects::CBioseq_Handle&) const': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_util.cpp:130:39: warning: 'std::string ncbi::objects::sequence::GetTitle(const ncbi::objects::CBioseq_Handle&, TGetTitleFlags)' is deprecated [-Wdeprecated-declarations] - 130 | string id_str = sequence::GetTitle( bsh ); - | ~~~~~~~~~~~~~~~~~~^~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:289:8: note: declared here - 289 | string GetTitle(const CBioseq_Handle& hnd, TGetTitleFlags flags = 0); - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/dbindex/sequence_istream_fasta.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/makeindex/main.cpp:42: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/gap_trim.cpp:44: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/win_mask_util.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/win_mask_config.hpp:46, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_config.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbictype.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistre.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/dbindex/sequence_istream_fasta.hpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_stack.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidbg.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_config.cpp:34: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/win_mask_util.hpp:188:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 188 | auto_ptr< CNcbiIstream > m_InputFile; // input file - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/gbloader.hpp:48, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/gbload_util.cpp:34: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/gbload_util.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/gbload_util.cpp:33: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/win_mask_util.hpp:189:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 189 | auto_ptr< CMaskReader > m_Reader; // reader used for fasta and bdb formats - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_edit.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/external_annots.cpp:43: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_edit.cpp:32: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -37124,334 +37084,117 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/dbindex/sequence_istream_fasta.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/makeindex/mkindex_app.cpp:49: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=writedb_lmdb_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/unit_test/writedb_lmdb_unit_test.cpp -o writedb_lmdb_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie writedb_lmdb_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lwritedb -lseqdb -lxobjread -lvariation -lsubmit -lxlogging -lxobjutil -lblastdb -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o writedb_lmdb_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f writedb_lmdb_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f writedb_lmdb_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/writedb_lmdb_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test' -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/esearch.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/pub_fix.cpp:63: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/eutils.hpp:198:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 198 | auto_ptr m_Stream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_dup_table.cpp:48: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_util.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/biblio/ArticleId_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/biblio/ArticleId.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/pub_fix.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id1' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/id1/reader_id1.cpp -o reader_id1.o -/bin/rm -f libncbi_xreader_id1.a .libncbi_xreader_id1.a.stamp -/bin/rm -f libncbi_xreader_id1.so .libncbi_xreader_id1.so.stamp -ar cr libncbi_xreader_id1.a reader_id1.o -/usr/bin/g++ -std=gnu++14 -shared -o libncbi_xreader_id1.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC reader_id1.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lncbi_xreader -lid2 -lxobjmgr -lid1 -lseqedit -lseqsplit -lsubmit -lgenome_collection -lseqset -lseq -lpub -lmedline -lbiblio -lgeneral -lseqcode -lxcompress -lxser -lsequtil -lxconnect -lxutil -lxncbi -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libncbi_xreader_id1.a /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libncbi_xreader_id1.a /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libncbi_xreader_id1.a -/bin/ln -f .ncbi_xreader_id1-static.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.ncbi_xreader_id1-static.dep -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libncbi_xreader_id1.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libncbi_xreader_id1.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libncbi_xreader_id1.so -/bin/ln -f .ncbi_xreader_id1.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.ncbi_xreader_id1.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id1' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id1' -cd objtools/data_loaders/genbank/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=ncbi_xloader_genbank UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/makeindex/mkindex_app.cpp: In member function 'virtual void ncbi::CMkIndexApplication::Init()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/makeindex/mkindex_app.cpp:67:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 67 | auto_ptr< CArgDescriptions > arg_desc( new CArgDescriptions ); +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/win_mask_dup_table.hpp:46, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_dup_table.cpp:50: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/win_mask_util.hpp:188:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 188 | auto_ptr< CNcbiIstream > m_InputFile; // input file + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank TMPL=ncbi_xloader_genbank -w -j12 --jobserver-auth=7,8 all -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/seqmasks_io/mask_fasta_reader.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_config.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/win_mask_util.hpp:189:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 189 | auto_ptr< CMaskReader > m_Reader; // reader used for fasta and bdb formats + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/seqmasks_io/mask_fasta_reader.hpp:94:32: warning: 'ncbi::objects::CFastaReader::fAllSeqIds' is deprecated: This flag is no longer used in CFastaReader. [-Wdeprecated-declarations] - 94 | objects::CFastaReader::fAllSeqIds | - | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:92:9: note: declared here - 92 | fAllSeqIds NCBI_STD_DEPRECATED("This flag is no longer used in CFastaReader.") = 1<< 6, ///< Read Seq-ids past the first ^A (see note) - | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/seqmasks_io/mask_fasta_reader.hpp:94:32: warning: 'ncbi::objects::CFastaReader::fAllSeqIds' is deprecated: This flag is no longer used in CFastaReader. [-Wdeprecated-declarations] - 94 | objects::CFastaReader::fAllSeqIds | - | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:92:9: note: declared here - 92 | fAllSeqIds NCBI_STD_DEPRECATED("This flag is no longer used in CFastaReader.") = 1<< 6, ///< Read Seq-ids past the first ^A (see note) - | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/unit_test/writedb_unit_test.cpp: In function 'ncbi::CRef s_GetScope()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/unit_test/writedb_unit_test.cpp:558:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 558 | auto_ptr ois +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/request_result.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/dispatcher.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/gbnative.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/gbloader.cpp:66: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:85: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:77: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/gbnative.cpp:64: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:85: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:77: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_config.cpp:45: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/blastdb_dataextract.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/seq_formatter.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/unit_test/seq_formatter_unit_test.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_reader/seqdbcommon.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_reader/seqdb.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/blastdb_seqid.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/seq_formatter.hpp:37: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 364 | auto_ptr &feat_ci, | ^~~~~~~~ @@ -37464,38 +37207,67 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/unit_test/writedb_unit_test.cpp: In member function 'void writedb::CBuildDatabase_WGS_gap::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/unit_test/writedb_unit_test.cpp:2825:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 2825 | auto_ptr ois +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/request_result.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/dispatcher.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/gbloader.cpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/gbnative.hpp:48, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/gbnative.cpp:34: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_window.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/win_mask_counts_converter.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_counts_converter.cpp:42: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_param.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/gbnative.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_util.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_counts_converter.cpp:37: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader_snp.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/processor.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/dispatcher.hpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:103:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 103 | auto_ptr m_Indices; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:154:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 154 | auto_ptr m_Indices; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/blastdb_dataextract.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/seq_formatter.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/unit_test/seq_formatter_unit_test.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/seqdb_reader/seqdb_unit_test.cpp:42: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -37507,8 +37279,35 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_reader/seqdbcommon.hpp:42, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_reader/seqdb.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/blastdb_seqid.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/seq_formatter.hpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_reader/seqdbexpert.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/seqdb_reader/seqdb_unit_test.cpp:34: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:367:10: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 367 | std::auto_ptr< CComponentVersionInfo > fmt_version; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_gen_counts.cpp:46: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -37546,6 +37345,86 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader_snp.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/processor.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/dispatcher.hpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:103:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 103 | auto_ptr m_Indices; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:154:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 154 | auto_ptr m_Indices; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/gbnative.cpp: In member function 'void ncbi::objects::CGBDataLoader_Native::x_CreateDriver(const ncbi::objects::CGBLoaderParams&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/gbnative.cpp:291:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 291 | auto_ptr app_params; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/psg_loader_impl.cpp:42: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/psg_loader_impl.cpp:34: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/win_mask_util.hpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ @@ -37558,51 +37437,17 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/seqdb_reader' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=seqdb_lmdb_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/seqdb_reader/seqdb_lmdb_unit_test.cpp -o seqdb_lmdb_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie seqdb_lmdb_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lseqdb -lwritedb -lxobjutil -lblastdb -lxobjread -lvariation -lsubmit -lxlogging -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -llmdb -lpthread -lm -lpthread -o seqdb_lmdb_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f seqdb_lmdb_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f seqdb_lmdb_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/seqdb_lmdb_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/seqdb_reader' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/seqdb_reader' -tack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/sparse_aln.cpp -o sparse_aln.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/sparse_ci.cpp -o sparse_ci.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alntext.cpp -o alntext.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/score_builder_base.cpp -o score_builder_base.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/aln_container.cpp -o aln_container.o -/bin/rm -f libxalnmgr.so .libxalnmgr.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libxalnmgr.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC aln_builders.o aln_converters.o aln_generators.o aln_seqid.o aln_serial.o alndiag.o alnmap.o alnmapprint.o alnmatch.o alnmerger.o alnmix.o alnpos_ci.o alnsegments.o alnseq.o alnvec.o alnvec_iterator.o alnvecprint.o pairwise_aln.o sparse_aln.o sparse_ci.o alntext.o score_builder_base.o aln_container.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxobjutil -lxobjmgr -lseqset -lseq -lxser -ltables -lxncbi -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libxalnmgr.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/gbloader.hpp:48, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/gbload_util.cpp:34: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/gbload_util.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/gbload_util.cpp:33: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -37618,6 +37463,24 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 364 | auto_ptr &feat_ci, | ^~~~~~~~ @@ -37630,6 +37493,9 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/text_object_description.cpp:336:15: warning: 'std::string ncbi::objects::edit::GetTextObjectDescription(const ncbi::objects::CSeq_feat&, ncbi::objects::CScope&, const std::string&)' defined but not used [-Wunused-function] + 336 | static string GetTextObjectDescription(const CSeq_feat& seq_feat, CScope& scope, const string& product) + | ^~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/seq_writer.hpp:85:69: warning: 'CSeqFormatterConfig' is deprecated [-Wdeprecated-declarations] 85 | CSeqFormatterConfig config = CSeqFormatterConfig()); | ^ @@ -37654,37 +37520,63 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/seq_writer.hpp:43:24: note: declared here 43 | struct NCBI_DEPRECATED CSeqFormatterConfig { | ^~~~~~~~~~~~~~~~~~~ -in/ln -f libxalnmgr.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libxalnmgr.so -/bin/ln -f .xalnmgr.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.xalnmgr.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/alnmgr' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/alnmgr' -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/request_result.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/dispatcher.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/gbnative.cpp:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/gbloader.hpp:48, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/gbloader.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_param.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/gbloader.cpp:34: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/win_mask_util.hpp:188:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 188 | auto_ptr< CNcbiIstream > m_InputFile; // input file + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/win_mask_util.hpp:189:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 189 | auto_ptr< CMaskReader > m_Reader; // reader used for fasta and bdb formats + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_util.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/win_mask_util.hpp:188:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 188 | auto_ptr< CNcbiIstream > m_InputFile; // input file + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/win_mask_util.hpp:189:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 189 | auto_ptr< CMaskReader > m_Reader; // reader used for fasta and bdb formats + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/sparse_aln.hpp:38: +In member function 'ncbi::CAlignRangeCollExtender::position_type ncbi::CAlignRangeCollExtender::GetSecondFrom() const [with TColl = ncbi::CAlignRangeCollectionList >]', + inlined from 'ncbi::CRange ncbi::CAlignRangeCollExtender::GetSecondRange() const [with TColl = ncbi::CAlignRangeCollectionList >]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/util/align_range_coll.hpp:1811:16, + inlined from 'void ncbi::CSparseAln::x_Build(const ncbi::CAnchoredAln&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/sparse_aln.cpp:230:49: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/util/align_range_coll.hpp:1790:16: warning: '*(__vector(2) int*)((char*)&ext + offsetof(ncbi::CAlignRangeCollExtender > >,ncbi::CAlignRangeCollExtender > >::m_From))' may be used uninitialized [-Wmaybe-uninitialized] + 1790 | return m_From; + | ^~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/sparse_aln.cpp: In member function 'void ncbi::CSparseAln::x_Build(const ncbi::CAnchoredAln&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/sparse_aln.cpp:228:46: note: 'ext' declared here + 228 | CAlignRangeCollExtender ext(*m_Aln->GetPairwiseAlns()[row]); + | ^~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/seqmasks_io/mask_fasta_reader.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/win_mask_gen_counts.hpp:47: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -37800,6 +37692,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/seq_writer.hpp:77:50: note: declared here 77 | class NCBI_BLASTDB_FORMAT_EXPORT NCBI_DEPRECATED CSeqFormatter | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/seqmasks_io/mask_fasta_reader.hpp:94:32: warning: 'ncbi::objects::CFastaReader::fAllSeqIds' is deprecated: This flag is no longer used in CFastaReader. [-Wdeprecated-declarations] + 94 | objects::CFastaReader::fAllSeqIds | + | ^~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/unit_test/seq_writer_unit_test.cpp: In member function 'void seq_writer::TestMaskedFasta::test_method()': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/unit_test/seq_writer_unit_test.cpp:313:25: warning: 'CSeqFormatterConfig' is deprecated [-Wdeprecated-declarations] 313 | CSeqFormatterConfig config; @@ -37813,6 +37708,15 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/seq_writer.hpp:77:50: note: declared here 77 | class NCBI_BLASTDB_FORMAT_EXPORT NCBI_DEPRECATED CSeqFormatter | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:92:9: note: declared here + 92 | fAllSeqIds NCBI_STD_DEPRECATED("This flag is no longer used in CFastaReader.") = 1<< 6, ///< Read Seq-ids past the first ^A (see note) + | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/seqmasks_io/mask_fasta_reader.hpp:94:32: warning: 'ncbi::objects::CFastaReader::fAllSeqIds' is deprecated: This flag is no longer used in CFastaReader. [-Wdeprecated-declarations] + 94 | objects::CFastaReader::fAllSeqIds | + | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:92:9: note: declared here + 92 | fAllSeqIds NCBI_STD_DEPRECATED("This flag is no longer used in CFastaReader.") = 1<< 6, ///< Read Seq-ids past the first ^A (see note) + | ^~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/unit_test/seq_writer_unit_test.cpp: In member function 'void seq_writer::TestMaskedSequenceData::test_method()': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/unit_test/seq_writer_unit_test.cpp:357:25: warning: 'CSeqFormatterConfig' is deprecated [-Wdeprecated-declarations] 357 | CSeqFormatterConfig config; @@ -37826,57 +37730,85 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/seq_writer.hpp:77:50: note: declared here 77 | class NCBI_BLASTDB_FORMAT_EXPORT NCBI_DEPRECATED CSeqFormatter | ^~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader_snp.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/processor.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/dispatcher.hpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:103:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 103 | auto_ptr m_Indices; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_window.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:154:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 154 | auto_ptr m_Indices; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/gbnative.cpp: In member function 'void ncbi::objects::CGBDataLoader_Native::x_CreateDriver(const ncbi::objects::CGBLoaderParams&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/gbnative.cpp:291:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 291 | auto_ptr app_params; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex/makeindex' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=makembindex /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/makeindex/main.cpp -o main.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=makembindex /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/makeindex/mkindex_app.cpp -o mkindex_app.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie main.o mkindex_app.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxalgoblastdbindex -lblast -lcomposition_adjustment -lseqdb -lblastdb -lxobjread -lvariation -lsubmit -lxlogging -lxobjutil -ltables -lxconnect -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o makembindex -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f makembindex /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f makembindex /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/makembindex -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex/makeindex' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex/makeindex' -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/psg_loader_impl.cpp:42: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/win_mask_gen_counts.hpp:51: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/win_mask_util.hpp:188:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 188 | auto_ptr< CNcbiIstream > m_InputFile; // input file + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/win_mask_util.hpp:189:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 189 | auto_ptr< CMaskReader > m_Reader; // reader used for fasta and bdb formats + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/seqmasks_io/mask_fasta_reader.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_util.cpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_edit.cpp:33: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/psg_loader_impl.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_edit.cpp:32: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/psg_loader.cpp:41: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] @@ -37890,6 +37822,18 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/seqmasks_io/mask_fasta_reader.hpp:94:32: warning: 'ncbi::objects::CFastaReader::fAllSeqIds' is deprecated: This flag is no longer used in CFastaReader. [-Wdeprecated-declarations] + 94 | objects::CFastaReader::fAllSeqIds | + | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:92:9: note: declared here + 92 | fAllSeqIds NCBI_STD_DEPRECATED("This flag is no longer used in CFastaReader.") = 1<< 6, ///< Read Seq-ids past the first ^A (see note) + | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/seqmasks_io/mask_fasta_reader.hpp:94:32: warning: 'ncbi::objects::CFastaReader::fAllSeqIds' is deprecated: This flag is no longer used in CFastaReader. [-Wdeprecated-declarations] + 94 | objects::CFastaReader::fAllSeqIds | + | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:92:9: note: declared here + 92 | fAllSeqIds NCBI_STD_DEPRECATED("This flag is no longer used in CFastaReader.") = 1<< 6, ///< Read Seq-ids past the first ^A (see note) + | ^~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] @@ -37898,32 +37842,123 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/request_result.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/dispatcher.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/gbloader.cpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/esearch.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/pub_fix.cpp:63: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/eutils.hpp:198:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 198 | auto_ptr m_Stream; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/biblio/ArticleId_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/biblio/ArticleId.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/pub_fix.cpp:36: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader_snp.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/processor.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/dispatcher.hpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:103:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 103 | auto_ptr m_Indices; +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/blastdb/bdbloader_rmt.cpp -o bdbloader_rmt.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/blastdb/remote_blastdb_adapter.cpp -o remote_blastdb_adapter.o +/bin/rm -f libncbi_xloader_blastdb_rmt.so .libncbi_xloader_blastdb_rmt.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libncbi_xloader_blastdb_rmt.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC bdbloader_rmt.o remote_blastdb_adapter.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lncbi_xloader_blastdb -lblast_services -lxobjmgr -lseq -lxncbi -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libncbi_xloader_blastdb_rmt.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libncbi_xloader_blastdb_rmt.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libncbi_xloader_blastdb_rmt.so +/bin/ln -f .ncbi_xloader_blastdb_rmt.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.ncbi_xloader_blastdb_rmt.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_util.cpp: In member function 'virtual bool ncbi::CWinMaskUtil::CIdSet_TextMatch::find(const ncbi::objects::CBioseq_Handle&) const': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_util.cpp:130:39: warning: 'std::string ncbi::objects::sequence::GetTitle(const ncbi::objects::CBioseq_Handle&, TGetTitleFlags)' is deprecated [-Wdeprecated-declarations] + 130 | string id_str = sequence::GetTitle( bsh ); + | ~~~~~~~~~~~~~~~~~~^~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:289:8: note: declared here + 289 | string GetTitle(const CBioseq_Handle& hnd, TGetTitleFlags flags = 0); + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/win_mask_dup_table.hpp:45, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_gen_counts.cpp:54: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:154:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 154 | auto_ptr m_Indices; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/seqmasks_io/mask_fasta_reader.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_config.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:367:10: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 367 | std::auto_ptr< CComponentVersionInfo > fmt_version; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/seqmasks_io/mask_fasta_reader.hpp:94:32: warning: 'ncbi::objects::CFastaReader::fAllSeqIds' is deprecated: This flag is no longer used in CFastaReader. [-Wdeprecated-declarations] + 94 | objects::CFastaReader::fAllSeqIds | + | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:92:9: note: declared here + 92 | fAllSeqIds NCBI_STD_DEPRECATED("This flag is no longer used in CFastaReader.") = 1<< 6, ///< Read Seq-ids past the first ^A (see note) + | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/seqmasks_io/mask_fasta_reader.hpp:94:32: warning: 'ncbi::objects::CFastaReader::fAllSeqIds' is deprecated: This flag is no longer used in CFastaReader. [-Wdeprecated-declarations] + 94 | objects::CFastaReader::fAllSeqIds | + | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:92:9: note: declared here + 92 | fAllSeqIds NCBI_STD_DEPRECATED("This flag is no longer used in CFastaReader.") = 1<< 6, ///< Read Seq-ids past the first ^A (see note) + | ^~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_config.cpp:45: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/seqdb_reader' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=seqdb_lmdb_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/seqdb_reader/seqdb_lmdb_unit_test.cpp -o seqdb_lmdb_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie seqdb_lmdb_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lseqdb -lwritedb -lxobjutil -lblastdb -lxobjread -lvariation -lsubmit -lxlogging -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -llmdb -lpthread -lm -lpthread -o seqdb_lmdb_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f seqdb_lmdb_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f seqdb_lmdb_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/seqdb_lmdb_unit_test +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/seqdb_reader' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/seqdb_reader' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex/makeindex' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=makembindex /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/makeindex/main.cpp -o main.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=makembindex /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/makeindex/mkindex_app.cpp -o mkindex_app.o +/usr/bin/g++ -std=gnu++14 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-Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/sparse_ci.cpp -o sparse_ci.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alntext.cpp -o alntext.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/score_builder_base.cpp -o score_builder_base.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/aln_container.cpp -o aln_container.o +/bin/rm -f libxalnmgr.so .libxalnmgr.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libxalnmgr.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC aln_builders.o aln_converters.o aln_generators.o aln_seqid.o aln_serial.o alndiag.o alnmap.o alnmapprint.o alnmatch.o alnmerger.o alnmix.o alnpos_ci.o alnsegments.o alnseq.o alnvec.o alnvec_iterator.o alnvecprint.o pairwise_aln.o sparse_aln.o sparse_ci.o alntext.o score_builder_base.o aln_container.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxobjutil -lxobjmgr -lseqset -lseq -lxser -ltables -lxncbi -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libxalnmgr.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libxalnmgr.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libxalnmgr.so +/bin/ln -f .xalnmgr.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.xalnmgr.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/alnmgr' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/alnmgr' or=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/external_annots.cpp -o external_annots.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/feature_propagate.cpp -o feature_propagate.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/text_object_description.cpp -o text_object_description.o @@ -37949,36 +37984,20 @@ make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/api' /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api TMPL=xblast -w -j12 --jobserver-auth=7,8 all -qset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libxobjedit.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libxobjedit.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libxobjedit.so -/bin/ln -f .xobjedit.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.xobjedit.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/edit' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/edit' -cd objtools/cleanup/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=cleanup UNIX_PROJ="" sources= configurables=configurables.null make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/cleanup' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/api' /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_aux.cpp -o blast_aux.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_options_cxx.cpp -o blast_options_cxx.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_options_local_priv.cpp -o blast_options_local_priv.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_options_builder.cpp -o blast_options_builder.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_setup_cxx.cpp -o blast_setup_cxx.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-bmake[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/cleanup' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/cleanup' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/cleanup' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/cleanup' -last+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_seqalign.cpp -o blast_seqalign.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_seqalign.cpp -o blast_seqalign.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_options_handle.cpp -o blast_options_handle.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_nucl_options.cpp -o blast_nucl_options.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/disc_nucl_options.cpp -o disc_nucl_options.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_prot_options.cpp -o blast_prot_options.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/psiblast_options.cpp -o psiblast_options.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup TMPL=cleanup -w -j12 --jobserver-auth=7,8 all -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_setup_cxx.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) @@ -38088,6 +38107,22 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ +qset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libxobjedit.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libxobjedit.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libxobjedit.so +/bin/ln -f .xobjedit.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.xobjedit.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/edit' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/edit' +cd objtools/cleanup/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=cleanup UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/cleanup' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/cleanup' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/cleanup' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/cleanup' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/cleanup' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup TMPL=cleanup -w -j12 --jobserver-auth=7,8 all make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/cleanup' /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/autogenerated_cleanup.cpp -o autogenerated_cleanup.o @@ -38101,11 +38136,20 @@ /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/newcleanupp.cpp -o newcleanupp.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/capitalization_string.cpp -o capitalization_string.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/fix_feature_id.cpp -o fix_feature_id.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+dsIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+dsmake[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format/unit_test' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=blastdb_format_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/unit_test/seq_writer_unit_test.cpp -o seq_writer_unit_test.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=blastdb_format_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/unit_test/seq_formatter_unit_test.cpp -o seq_formatter_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie seq_writer_unit_test.o seq_formatter_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lblastdb_format -lxobjutil -lseqdb -lblastdb -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -llmdb -lpthread -lm -lpthread -o blastdb_format_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blastdb_format_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f blastdb_format_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blastdb_format_unit_test +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format/unit_test' +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_seqalign.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_seqalign.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_nucl_options.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_nucl_options.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -38113,7 +38157,10 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_seqalign.hpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -38129,6 +38176,7 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format/unit_test' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, @@ -38162,8 +38210,9 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_prot_options.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_prot_options.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_nucl_options.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/disc_nucl_options.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/disc_nucl_options.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -38190,12 +38239,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 743 | auto_ptr m_ObjectStream; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/gene_qual_normalization.cpp:39: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; @@ -38208,22 +38251,21 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/gbloader.cpp -o gbloader.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/gbnative.cpp -o gbnative.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/gbload_util.cpp -o gbload_util.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/psg_loader.cpp -o psg_loader.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/psg_loader_impl.cpp -o psg_loader_impl.o -/bin/rm -f libncbi_xloader_genbank.a .libncbi_xloader_genbank.a.stamp -ar cr libncbi_xloader_genbank.a gbloader.o gbnative.o gbload_util.o psg_loader.o psg_loader_impl.o -/bin/rm -f libncbi_xloader_genbank.so .libncbi_xloader_genbank.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libncbi_xloader_genbank.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC gbloader.o gbnative.o gbload_util.o psg_loader.o psg_loader_impl.o -Wl,-In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/gene_qual_normalization.cpp:40: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_aux.cpp:49: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_id_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_id.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_aux.cpp:36: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -38239,22 +38281,17 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_user_object.cpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 743 | auto_ptr m_ObjectStream; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_user_object.cpp:33: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/cleanup/cleanup.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_author.cpp:42: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_setup_cxx.cpp:38: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -38262,7 +38299,11 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_author.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbitime.hpp:65, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_system.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbifile.hpp:53, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/util/util_misc.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_setup_cxx.cpp:35: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -38278,52 +38319,39 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lncbi_xreader_cache -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader -lid2 -lxobjmgr -lid1 -lseqedit -lseqsplit -lsubmit -lgenome_collection -lseqset -lseq -lpub -lmedline -lbiblio -lgeneral -lseqcode -lxcompress -lxser -lsequtil -lxconnect -lxutil -lxncbi -lz -lbz2 -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libncbi_xloader_genbank.a /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libncbi_xloader_genbank.a /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libncbi_xloader_genbank.a -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libncbi_xloader_genbank.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f .ncbi_xloader_genbank-static.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.ncbi_xloader_genbank-static.dep -/bin/ln -f libncbi_xloader_genbank.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libncbi_xloader_genbank.so -/bin/ln -f .ncbi_xloader_genbank.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.ncbi_xloader_genbank.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' -cd objtools/align_format/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=align_format UNIX_PROJ="" sources= configurables=configurables.null -cd objtools/simple/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=xobjsimple UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/align_format' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -cd app/dustmasker/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=dustmasker LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -cd app/winmasker/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=winmasker LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/simple' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/dustmasker' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/winmasker' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_prot_options.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_prot_options.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/align_format' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/align_format' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/align_format' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/simple' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/simple' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/align_format' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/simple' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/simple' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format TMPL=align_format -w -j12 --jobserver-auth=7,8 all +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, @@ -38345,7 +38373,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/simple TMPL=xobjsimple -w -j12 --jobserver-auth=7,8 all /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ @@ -38358,26 +38385,13 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/winmasker' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/winmasker' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/dustmasker' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/dustmasker' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/fix_feature_id.cpp:32: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/gene_qual_normalization.cpp:40: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqfeat/Feat_id_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqfeat/Feat_id.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/fix_feature_id.cpp:31: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -38393,27 +38407,26 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/dustmasker' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/dustmasker' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/winmasker' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/winmasker' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format/unit_test' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=blastdb_format_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/unit_test/seq_writer_unit_test.cpp -o seq_writer_unit_test.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=blastdb_format_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/unit_test/seq_formatter_unit_test.cpp -o seq_formatter_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie seq_writer_unit_test.o seq_formatter_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lblastdb_format -lxobjutil -lseqdb -lblastdb -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -llmdb -lpthread -lm -lpthread -o blastdb_format_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blastdb_format_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f blastdb_format_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blastdb_format_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format/unit_test' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/dustmasker TMPL=dustmasker -w -j12 --jobserver-auth=7,8 all -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker TMPL=winmasker -w -j12 --jobserver-auth=7,8 all -make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_setup_cxx.cpp:38: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_prot_options.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_rps_options.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_rps_options.cpp:34: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_prot_options.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_advprot_options.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/psiblast_options.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/psiblast_options.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -38421,15 +38434,36 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbitime.hpp:65, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_system.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbifile.hpp:53, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/util/util_misc.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_setup_cxx.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:37: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:37: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format/unit_test' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ @@ -38442,15 +38476,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/align_format' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLASTFORMAT -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/format_flags.cpp -o format_flags.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLASTFORMAT -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/align_format_util.cpp -o align_format_util.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLASTFORMAT -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showdefline.cpp -o showdefline.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLASTFORMAT -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showalign.cpp -o showalign.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLASTFORMAT -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/tabular.cpp -o tabular.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLASTFORMAT -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproduciblemake[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, @@ -38487,8 +38512,24 @@ | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/cleanup/cleanup.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_author.cpp:42: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_author.cpp:33: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_aux.cpp:49: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_seqalign.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_seqalign.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -38496,10 +38537,19 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_id_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_id.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_aux.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_seqalign.hpp:37: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -38515,15 +38565,49 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_options_handle.cpp: In member function 'char* ncbi::blast::CBlastOptionsHandle::GetFilterString() const': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_options_handle.cpp:100:35: warning: 'char* ncbi::blast::CBlastOptions::GetFilterString() const' is deprecated [-Wdeprecated-declarations] + 100 | return m_Opts->GetFilterString(); /* NCBI_FAKE_WARNING */ + | ~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:178:27: note: declared here + 178 | NCBI_DEPRECATED char* GetFilterString() const; + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_options_handle.cpp: In member function 'void ncbi::blast::CBlastOptionsHandle::SetFilterString(const char*, bool)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_options_handle.cpp:106:28: warning: 'void ncbi::blast::CBlastOptions::SetFilterString(const char*, bool)' is deprecated [-Wdeprecated-declarations] + 106 | m_Opts->SetFilterString(f, clear); /* NCBI_FAKE_WARNING */ + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:180:26: note: declared here + 180 | NCBI_DEPRECATED void SetFilterString(const char* f, bool clear = true); + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_user_object.cpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_user_object.cpp:33: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_prot_options.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_advprot_options.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/psiblast_options.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/psiblast_options.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_options_cxx.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -38550,9 +38634,259 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/gbloader.cpp -o gbloader.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/gbnative.cpp -o gbnative.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/gbload_util.cpp -o gbload_util.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/psg_loader.cpp -o psg_loader.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/psg_loader_impl.cpp -o psg_loader_impl.o +/bin/rm -f libncbi_xloader_genbank.a .libncbi_xloader_genbank.a.stamp +ar cr libncbi_xloader_genbank.a gbloader.o gbnative.o gbload_util.o psg_loader.o psg_loader_impl.o +/bin/rm -f libncbi_xloader_genbank.so .libncbi_xloader_genbank.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libncbi_xloader_genbank.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC gbloader.o gbnative.o gbload_util.o psg_loader.o psg_loader_impl.o -Wl,-In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/fix_feature_id.cpp:32: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqfeat/Feat_id_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqfeat/Feat_id.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/fix_feature_id.cpp:31: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/cleanup/capitalization_string.hpp:32, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/capitalization_string.cpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/capitalization_string.cpp:33: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_utils.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_utils.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_utils.cpp:34: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/cleanup/cleanup.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_pub.cpp:49: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_pub.cpp:33: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lncbi_xreader_cache -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader -lid2 -lxobjmgr -lid1 -lseqedit -lseqsplit -lsubmit -lgenome_collection -lseqset -lseq -lpub -lmedline -lbiblio -lgeneral -lseqcode -lxcompress -lxser -lsequtil -lxconnect -lxutil -lxncbi -lz -lbz2 -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libncbi_xloader_genbank.a /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libncbi_xloader_genbank.a /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libncbi_xloader_genbank.a +/bin/ln -f .ncbi_xloader_genbank-static.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.ncbi_xloader_genbank-static.dep +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libncbi_xloader_genbank.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libncbi_xloader_genbank.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libncbi_xloader_genbank.so +/bin/ln -f .ncbi_xloader_genbank.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.ncbi_xloader_genbank.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/capitalization_string.cpp: In function 'void ncbi::objects::CapitalizeAfterApostrophe(std::string&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/capitalization_string.cpp:911:25: warning: comparison of integer expressions of different signedness: 'const int' and 'size_t' {aka 'long unsigned int'} [-Wsign-compare] + 911 | if (rslt[0] != start) + | ~~~~~~~~^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/capitalization_string.cpp: In function 'void ncbi::objects::FixAffiliationShortWordsInElement(std::string&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/capitalization_string.cpp:950:29: warning: comparison of integer expressions of different signedness: 'const int' and 'size_t' {aka 'long unsigned int'} [-Wsign-compare] + 950 | if (rslt[0] != start) + | ~~~~~~~~^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/capitalization_string.cpp: In function 'void ncbi::objects::FixOrdinalNumbers(std::string&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/capitalization_string.cpp:977:29: warning: comparison of integer expressions of different signedness: 'const int' and 'size_t' {aka 'long unsigned int'} [-Wsign-compare] + 977 | if (rslt[0] != start) + | ~~~~~~~~^~~~~~~~ +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' +cd objtools/align_format/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=align_format UNIX_PROJ="" sources= configurables=configurables.null +cd objtools/simple/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=xobjsimple UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/align_format' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +cd app/dustmasker/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=dustmasker LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +cd app/winmasker/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=winmasker LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/simple' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/dustmasker' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/winmasker' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/align_format' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/align_format' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/align_format' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/align_format' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/dustmasker' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/dustmasker' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/simple' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/dustmasker' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/simple' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/dustmasker' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/winmasker' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format TMPL=align_format -w -j12 --jobserver-auth=7,8 all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/simple' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/simple' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/winmasker' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/simple TMPL=xobjsimple -w -j12 --jobserver-auth=7,8 all +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/dustmasker TMPL=dustmasker -w -j12 --jobserver-auth=7,8 all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/winmasker' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/winmasker' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker TMPL=winmasker -w -j12 --jobserver-auth=7,8 all +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/align_format' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLASTFORMAT -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/format_flags.cpp -o format_flags.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLASTFORMAT -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/align_format_util.cpp -o align_format_util.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLASTFORMAT -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showdefline.cpp -o showdefline.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLASTFORMAT -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showalign.cpp -o showalign.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLASTFORMAT -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/tabular.cpp -o tabular.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLASTFORMAT -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproduciblemake[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: warning: -j12 forced in submake: resetting jobserver mode. + -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_rps_options.cpp -o blast_rps_options.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blastx_options.cpp -o blastx_options.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/tblastx_options.cpp -o tblastx_options.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/tblastn_options.cpp -o tblastn_options.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/rpstblastn_options.cpp -o rpstblastn_options.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/phiblast_nucl_options.cpp -o phiblast_nucl_options.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_utils.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/autogenerated_extended_cleanup.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqset/Seq_entry_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqset/Seq_entry.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/autogenerated_extended_cleanup.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/autogenerated_extended_cleanup.cpp:34: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_user_object.cpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/dustmasker/dust_mask_app.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/dustmasker/main.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/align_format_util.cpp:46: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -38662,8 +38996,8 @@ 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/win_mask_app.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/main.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/dustmasker/dust_mask_app.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/dustmasker/main.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -38721,28 +39055,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_nucl_options.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/disc_nucl_options.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/disc_nucl_options.cpp:34: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:37: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ @@ -38794,21 +39106,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/dustmasker/dust_mask_app.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/dustmasker/dust_mask_app.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/win_mask_app.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/main.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -38833,6 +39133,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ +/build/reproducible-pat/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:76: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) | ^~~~~~~~~~~~~~~ @@ -38842,6 +39148,18 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^~~~~~~~~~~~~~~~~~~~~~~ +h/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^~~~~~~~~~~~~~~~~~~~~~~ @@ -38917,44 +39235,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_prot_options.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_rps_options.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_rps_options.cpp:34: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:37: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/align_format_util.cpp:46: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/dustmasker/dust_mask_app.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/dustmasker/dust_mask_app.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -39063,59 +39346,11 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:76: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_utils.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/autogenerated_extended_cleanup.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqset/Seq_entry_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqset/Seq_entry.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/autogenerated_extended_cleanup.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/autogenerated_extended_cleanup.cpp:34: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showalign.cpp:77: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_version.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/win_mask_sdust_masker.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/win_mask_sdust_masker.cpp:37: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -39206,47 +39441,10 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:77: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:76: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/tabular.cpp:39: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showalign.cpp:77: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -39355,14 +39553,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showdefline.cpp:55: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:76: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^ @@ -39381,11 +39571,10 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_version.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/win_mask_sdust_masker.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/win_mask_sdust_masker.cpp:37: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/taxFormat.cpp:51: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -39476,6 +39665,60 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:77: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_utils.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:76: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showdefline.cpp:55: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ @@ -39599,24 +39842,11 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_options_handle.cpp: In member function 'char* ncbi::blast::CBlastOptionsHandle::GetFilterString() const': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_options_handle.cpp:100:35: warning: 'char* ncbi::blast::CBlastOptions::GetFilterString() const' is deprecated [-Wdeprecated-declarations] - 100 | return m_Opts->GetFilterString(); /* NCBI_FAKE_WARNING */ - | ~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:178:27: note: declared here - 178 | NCBI_DEPRECATED char* GetFilterString() const; - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_options_handle.cpp: In member function 'void ncbi::blast::CBlastOptionsHandle::SetFilterString(const char*, bool)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_options_handle.cpp:106:28: warning: 'void ncbi::blast::CBlastOptions::SetFilterString(const char*, bool)' is deprecated [-Wdeprecated-declarations] - 106 | m_Opts->SetFilterString(f, clear); /* NCBI_FAKE_WARNING */ - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:180:26: note: declared here - 180 | NCBI_DEPRECATED void SetFilterString(const char* f, bool clear = true); - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/taxFormat.cpp:51: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/tabular.cpp:39: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -39743,40 +39973,18 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_prot_options.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blastx_options.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blastx_options.cpp:34: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_version.hpp:33, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:42, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker.hpp:41, @@ -39891,23 +40099,14 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup.cpp:58: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup.cpp:33: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_options_cxx.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_prot_options.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blastx_options.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blastx_options.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -39934,10 +40133,40 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_user_object.cpp: In static member function 'static bool ncbi::objects::CCleanup::s_AddNumToUserField(ncbi::objects::CUser_field&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_user_object.cpp:369:53: warning: comparison of integer expressions of different signedness: 'ncbi::objects::CUser_field_Base::TNum' {aka 'int'} and 'std::vector >::size_type' {aka 'long unsigned int'} [-Wsign-compare] + 369 | if (!field.IsSetNum() || field.GetNum() != field.GetData().GetStrs().size()) { + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_user_object.cpp:375:53: warning: comparison of integer expressions of different signedness: 'ncbi::objects::CUser_field_Base::TNum' {aka 'int'} and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] + 375 | if (!field.IsSetNum() || field.GetNum() != field.GetData().GetInts().size()) { + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_user_object.cpp:381:53: warning: comparison of integer expressions of different signedness: 'ncbi::objects::CUser_field_Base::TNum' {aka 'int'} and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] + 381 | if (!field.IsSetNum() || field.GetNum() != field.GetData().GetReals().size()) { + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_user_object.cpp:387:53: warning: comparison of integer expressions of different signedness: 'ncbi::objects::CUser_field_Base::TNum' {aka 'int'} and 'std::vector*>::size_type' {aka 'long unsigned int'} [-Wsign-compare] + 387 | if (!field.IsSetNum() || field.GetNum() != field.GetData().GetOss().size()) { + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_utils.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_utils.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_prot_options.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_advprot_options.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/tblastn_options.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/tblastn_options.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -39945,7 +40174,10 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_utils.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -39963,8 +40195,8 @@ | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/cleanup/capitalization_string.hpp:32, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/capitalization_string.cpp:40: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_utils.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/autogenerated_cleanup.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -39972,7 +40204,11 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/capitalization_string.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqset/Seq_entry_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqset/Seq_entry.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/autogenerated_cleanup.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/autogenerated_cleanup.cpp:34: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -39989,12 +40225,14 @@ 65 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_user_object.cpp:40: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/newcleanupp.cpp:42: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_autoinit.hpp:45, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/newcleanupp.cpp:39: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -40010,30 +40248,15 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/cleanup/cleanup.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_pub.cpp:49: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup.cpp:58: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_pub.cpp:33: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup.cpp:33: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -40042,8 +40265,9 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_nucl_options.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_nucl_options.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_prot_options.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/tblastx_options.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/tblastx_options.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -40070,93 +40294,10 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup.cpp:59: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/capitalization_string.cpp: In function 'void ncbi::objects::CapitalizeAfterApostrophe(std::string&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/capitalization_string.cpp:911:25: warning: comparison of integer expressions of different signedness: 'const int' and 'size_t' {aka 'long unsigned int'} [-Wsign-compare] - 911 | if (rslt[0] != start) - | ~~~~~~~~^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/capitalization_string.cpp: In function 'void ncbi::objects::FixAffiliationShortWordsInElement(std::string&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/capitalization_string.cpp:950:29: warning: comparison of integer expressions of different signedness: 'const int' and 'size_t' {aka 'long unsigned int'} [-Wsign-compare] - 950 | if (rslt[0] != start) - | ~~~~~~~~^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/capitalization_string.cpp: In function 'void ncbi::objects::FixOrdinalNumbers(std::string&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/capitalization_string.cpp:977:29: warning: comparison of integer expressions of different signedness: 'const int' and 'size_t' {aka 'long unsigned int'} [-Wsign-compare] - 977 | if (rslt[0] != start) - | ~~~~~~~~^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/newcleanupp.cpp:42: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_autoinit.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/newcleanupp.cpp:39: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_user_object.cpp: In static member function 'static bool ncbi::objects::CCleanup::s_AddNumToUserField(ncbi::objects::CUser_field&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_user_object.cpp:369:53: warning: comparison of integer expressions of different signedness: 'ncbi::objects::CUser_field_Base::TNum' {aka 'int'} and 'std::vector >::size_type' {aka 'long unsigned int'} [-Wsign-compare] - 369 | if (!field.IsSetNum() || field.GetNum() != field.GetData().GetStrs().size()) { - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_user_object.cpp:375:53: warning: comparison of integer expressions of different signedness: 'ncbi::objects::CUser_field_Base::TNum' {aka 'int'} and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] - 375 | if (!field.IsSetNum() || field.GetNum() != field.GetData().GetInts().size()) { - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_user_object.cpp:381:53: warning: comparison of integer expressions of different signedness: 'ncbi::objects::CUser_field_Base::TNum' {aka 'int'} and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] - 381 | if (!field.IsSetNum() || field.GetNum() != field.GetData().GetReals().size()) { - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_user_object.cpp:387:53: warning: comparison of integer expressions of different signedness: 'ncbi::objects::CUser_field_Base::TNum' {aka 'int'} and 'std::vector*>::size_type' {aka 'long unsigned int'} [-Wsign-compare] - 387 | if (!field.IsSetNum() || field.GetNum() != field.GetData().GetOss().size()) { - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_utils.cpp:38: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/newcleanupp.cpp:49: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ @@ -40180,22 +40321,36 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup.cpp:59: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_utils.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/autogenerated_cleanup.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_explorer.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmap.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnvec.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/seqalignfilter.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -40204,10 +40359,25 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqset/Seq_entry_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqset/Seq_entry.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/autogenerated_cleanup.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/autogenerated_cleanup.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/general/User_object_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/general/User_object.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/seqalignfilter.cpp:35: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/aln_printer.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/bioseq_handle.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/aln_printer.cpp:36: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -40223,34 +40393,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ - -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_rps_options.cpp -o blast_rps_options.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blastx_options.cpp -o blastx_options.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/tblastx_options.cpp -o tblastx_options.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/tblastn_options.cpp -o tblastn_options.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/rpstblastn_options.cpp -o rpstblastn_options.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/phiblast_nucl_options.cpp -o phiblast_nucl_options.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/simple/simple_om.hpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ @@ -40263,16 +40405,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/newcleanupp.cpp:49: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showdefline.cpp:38: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; @@ -40289,18 +40421,15 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup.cpp: In static member function 'static bool ncbi::objects::CCleanup::x_HasShortIntron(const ncbi::objects::CSeq_loc&, size_t)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup.cpp:2889:68: warning: comparison of integer expressions of different signedness: 'long int' and 'size_t' {aka 'long unsigned int'} [-Wsign-compare] - 2889 | if (abs((long int)this_start - (long int)prev_end) < min_len) { - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_prot_options.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/tblastx_options.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/tblastx_options.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_rps_options.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/rpstblastn_options.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/rpstblastn_options.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -40327,10 +40456,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup.cpp: In static member function 'static bool ncbi::objects::CCleanup::DecodeXMLMarkChanged(std::string&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup.cpp:4167:21: warning: comparison of integer expressions of different signedness: 'int' and 'long unsigned int' [-Wsign-compare] - 4167 | idx < sizeof(transformations)/sizeof(transformations[0]); - | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 364 | auto_ptr &feat_ci, | ^~~~~~~~ @@ -40346,11 +40471,10 @@ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_explorer.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmap.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnvec.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/seqalignfilter.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnseq.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmatch.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmix.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/tabular.cpp:37: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -40359,9 +40483,9 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/general/User_object_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/general/User_object.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/seqalignfilter.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_id_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_id.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/tabular.cpp:36: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -40402,12 +40526,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1554 | static auto_ptr m_GeneInfoReader; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, @@ -40415,7 +40533,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmap.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnvec.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showalign.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/align_format_util.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -40438,32 +40556,43 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/vectorscreen.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/vectorscreen.cpp:33: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1554 | static auto_ptr m_GeneInfoReader; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +-DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/phiblast_prot_options.cpp -o phiblast_prot_options.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/pssm_engine.cpp -o pssm_engine.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/local_blast.cpp -o local_blast.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/remote_blast.cpp -o remote_blast.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/seqinfosrc_seqvec.cpp -o seqinfosrc_seqvec.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/seqinfosrc_seqdb.cpp -o seqinfosrc_seqdb.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnseq.hpp:216:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 216 | auto_ptr m_Starts; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/html/html.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/vectorscreen.hpp:36: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/seqalignfilter.cpp:38: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/simple/simple_om.hpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ @@ -40476,83 +40605,90 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/aln_printer.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/seqalignfilter.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/bioseq_handle.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/aln_printer.cpp:36: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 108 | auto_ptr m_memGi2GeneFile; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 111 | auto_ptr m_memGene2OffsetFile; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/newcleanupp.cpp: In function 'typename TMapType::const_iterator ncbi::objects::s_FindInMapAsPrefix(const std::string&, const TMapType&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/newcleanupp.cpp:1187:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1187 | auto_ptr temp_str; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 114 | auto_ptr m_memGi2OffsetFile; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/win_mask_sdust_masker.hpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 117 | auto_ptr m_memGene2GiFile; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/seqalignfilter.cpp: In member function 'void ncbi::align_format::CSeqAlignFilter::ReadSeqalignSet(const std::string&, ncbi::objects::CSeq_align_set&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/seqalignfilter.cpp:516:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 516 | auto_ptr asn_in(CObjectIStream::Open(fname, eSerial_AsnText)); - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1554 | static auto_ptr m_GeneInfoReader; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/seqalignfilter.cpp: In member function 'void ncbi::align_format::CSeqAlignFilter::WriteSeqalignSet(const std::string&, const ncbi::objects::CSeq_align_set&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/seqalignfilter.cpp:522:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 522 | auto_ptr asn_out(CObjectOStream::Open(fname, eSerial_AsnText)); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/win_mask_app.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbictype.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistre.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_stack.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidbg.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/win_mask_app.cpp:34: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/tabular.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/tabular.cpp:38: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 108 | auto_ptr m_memGi2GeneFile; | ^~~~~~~~ @@ -40579,36 +40715,19 @@ | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showdefline.cpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1554 | static auto_ptr m_GeneInfoReader; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/dustmasker/dust_mask_app.hpp:40: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_explorer.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmap.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnvec.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showalign.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbictype.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistre.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:31: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -40624,6 +40743,15 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showdefline.cpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ @@ -40636,6 +40764,12 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1554 | static auto_ptr m_GeneInfoReader; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, @@ -40643,14 +40777,21 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmap.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnvec.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/align_format_util.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/taxFormat.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/taxFormat.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbictype.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistre.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:31: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/taxon1/Taxon1_data_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/taxon1/Taxon1_data.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/taxon1/taxon1__.hpp:1, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/taxon1/taxon1.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/taxFormat.cpp:33: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -40666,8 +40807,54 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/vectorscreen.hpp:42: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/align_format_util.cpp:93:1: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 93 | auto_ptr CAlignFormatUtil::m_GeneInfoReader; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/newcleanupp.cpp: In function 'typename TMapType::const_iterator ncbi::objects::s_FindInMapAsPrefix(const std::string&, const TMapType&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/newcleanupp.cpp:1187:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1187 | auto_ptr temp_str; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/seqalignfilter.cpp: In member function 'void ncbi::align_format::CSeqAlignFilter::ReadSeqalignSet(const std::string&, ncbi::objects::CSeq_align_set&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/seqalignfilter.cpp:516:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 516 | auto_ptr asn_in(CObjectIStream::Open(fname, eSerial_AsnText)); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/seqalignfilter.cpp: In member function 'void ncbi::align_format::CSeqAlignFilter::WriteSeqalignSet(const std::string&, const ncbi::objects::CSeq_align_set&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/seqalignfilter.cpp:522:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 522 | auto_ptr asn_out(CObjectOStream::Open(fname, eSerial_AsnText)); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/win_mask_app.cpp:45: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/align_format_util.cpp: In static member function 'static bool ncbi::align_format::CAlignFormatUtil::SortHitByPercentIdentityDescendingEx(const ncbi::CRef&, const ncbi::CRef&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/align_format_util.cpp:1448:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1448 | auto_ptr seqSetInfo1( CAlignFormatUtil::GetSeqAlignSetCalcParamsFromASN(*info1)); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/align_format_util.cpp:1449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1449 | auto_ptr seqSetInfo2( CAlignFormatUtil::GetSeqAlignSetCalcParamsFromASN(*info2)); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 108 | auto_ptr m_memGi2GeneFile; | ^~~~~~~~ @@ -40695,21 +40882,15 @@ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnseq.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmatch.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmix.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/tabular.cpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/win_mask_sdust_masker.hpp:40: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_id_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_id.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/tabular.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -40725,29 +40906,36 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/dustmasker/dust_mask_app.hpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 1554 | static auto_ptr m_GeneInfoReader; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup.cpp: In static member function 'static bool ncbi::objects::CCleanup::x_HasShortIntron(const ncbi::objects::CSeq_loc&, size_t)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup.cpp:2889:68: warning: comparison of integer expressions of different signedness: 'long int' and 'size_t' {aka 'long unsigned int'} [-Wsign-compare] + 2889 | if (abs((long int)this_start - (long int)prev_end) < min_len) { + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup.cpp: In static member function 'static bool ncbi::objects::CCleanup::DecodeXMLMarkChanged(std::string&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup.cpp:4167:21: warning: comparison of integer expressions of different signedness: 'int' and 'long unsigned int' [-Wsign-compare] + 4167 | idx < sizeof(transformations)/sizeof(transformations[0]); + | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/prelim_stage.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/local_blast.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/local_blast.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -40763,100 +40951,77 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/win_mask_app.cpp:46: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:159:14: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 159 | std::auto_ptr< TMaskList > operator()( const sequence_type & seq ); - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:168:14: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 168 | std::auto_ptr< TMaskList > operator()( const sequence_type & seq, - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/win_mask_app.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbictype.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistre.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_stack.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidbg.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/win_mask_app.cpp:34: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:367:10: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 367 | std::auto_ptr< CComponentVersionInfo > fmt_version; - | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/win_mask_sdust_masker.cpp: In member function 'ncbi::CSDustMasker::TMaskList* ncbi::CSDustMasker::operator()(const ncbi::objects::CSeqVector&, const TMaskList&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/win_mask_sdust_masker.cpp:103:14: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 103 | std::auto_ptr< TMaskList > result = duster_( - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/align_format_util.cpp: In static member function 'static ncbi::align_format::CAlignFormatUtil::SSeqAlignSetCalcParams* ncbi::align_format::CAlignFormatUtil::GetSeqAlignCalcParams(const ncbi::objects::CSeq_align&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/align_format_util.cpp:4076:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 4076 | auto_ptr seqSetInfo(new SSeqAlignSetCalcParams); + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showalign.cpp:35: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/gbloader.hpp:48, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/taxFormat.cpp:42: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/newcleanupp.cpp: In member function 'void ncbi::objects::CNewCleanup_imp::x_RemoveFlankingQuotes(std::string&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/newcleanupp.cpp:5849:22: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'long unsigned int'} [-Wsign-compare] - 5849 | for( ; first_pos <= last_pos ; ++first_pos, --last_pos ) { - | ~~~~~~~~~~^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/newcleanupp.cpp:5863:19: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'long unsigned int'} [-Wsign-compare] - 5863 | if( first_pos > last_pos ) { - | ~~~~~~~~~~^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/align_format_util.cpp: In static member function 'static ncbi::align_format::CAlignFormatUtil::SSeqAlignSetCalcParams* ncbi::align_format::CAlignFormatUtil::GetSeqAlignSetCalcParamsFromASN(const ncbi::objects::CSeq_align_set&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/align_format_util.cpp:4355:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 4355 | auto_ptr seqSetInfo(new SSeqAlignSetCalcParams); | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 654 | auto_ptr m_GeneInfoReader; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/vectorscreen.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/vectorscreen.cpp:33: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/html/html.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/vectorscreen.hpp:36: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:159:14: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 159 | std::auto_ptr< TMaskList > operator()( const sequence_type & seq ); - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:168:14: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 168 | std::auto_ptr< TMaskList > operator()( const sequence_type & seq, - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -40872,9 +41037,25 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnseq.hpp:216:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 216 | auto_ptr m_Starts; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_prot_options.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/phiblast_prot_options.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/phiblast_prot_options.cpp:34: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -40903,58 +41084,60 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/win_mask_app.cpp:45: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:367:10: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 367 | std::auto_ptr< CComponentVersionInfo > fmt_version; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/dustmasker/dust_mask_app.hpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1554 | static auto_ptr m_GeneInfoReader; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/simple' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/simple/simple_om.cpp -o simple_om.o -/bin/rm -f libxobjsimple.so .libxobjsimple.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libxobjsimple.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC simple_om.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lncbi_xloader_genbank -lxobjmgr -lseq -lxncbi -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libxobjsimple.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libxobjsimple.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libxobjsimple.so -/bin/ln -f .xobjsimple.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.xobjsimple.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/simple' -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/tabular.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/tabular.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 108 | auto_ptr m_memGi2GeneFile; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 111 | auto_ptr m_memGene2OffsetFile; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 114 | auto_ptr m_memGi2OffsetFile; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 117 | auto_ptr m_memGene2GiFile; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/simple' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1554 | static auto_ptr m_GeneInfoReader; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/win_mask_sdust_masker.cpp: In member function 'ncbi::CSDustMasker::TMaskList* ncbi::CSDustMasker::operator()(const ncbi::objects::CSeqVector&, const TMaskList&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/win_mask_sdust_masker.cpp:103:14: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 103 | std::auto_ptr< TMaskList > result = duster_( + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -40965,53 +41148,33 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/win_mask_app.cpp:46: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/taxFormat.cpp:43: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 869 | auto_ptr m_Gen; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/dustmasker/dust_mask_app.cpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_explorer.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmap.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnvec.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/taxFormat.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/taxFormat.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_nucl_options.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/phiblast_nucl_options.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/phiblast_nucl_options.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -41020,37 +41183,9 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/taxon1/Taxon1_data_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/taxon1/Taxon1_data.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/taxon1/taxon1__.hpp:1, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/taxon1/taxon1.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/taxFormat.cpp:33: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 108 | auto_ptr m_memGi2GeneFile; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 111 | auto_ptr m_memGene2OffsetFile; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 114 | auto_ptr m_memGi2OffsetFile; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 117 | auto_ptr m_memGene2GiFile; - | ^~~~~~~~ + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -41066,25 +41201,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1554 | static auto_ptr m_GeneInfoReader; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showalign.cpp:50: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/win_mask_app.cpp:52: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/seqmasks_io/mask_fasta_reader.hpp:94:32: warning: 'ncbi::objects::CFastaReader::fAllSeqIds' is deprecated: This flag is no longer used in CFastaReader. [-Wdeprecated-declarations] 94 | objects::CFastaReader::fAllSeqIds | @@ -41098,99 +41214,95 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:92:9: note: declared here 92 | fAllSeqIds NCBI_STD_DEPRECATED("This flag is no longer used in CFastaReader.") = 1<< 6, ///< Read Seq-ids past the first ^A (see note) | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:367:10: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 367 | std::auto_ptr< CComponentVersionInfo > fmt_version; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1554 | static auto_ptr m_GeneInfoReader; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmatch.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmix.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showalign.cpp:70: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnseq.hpp:216:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 216 | auto_ptr m_Starts; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/dustmasker/dust_mask_app.hpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/dustmasker/dust_mask_app.cpp:52: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 108 | auto_ptr m_memGi2GeneFile; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 111 | auto_ptr m_memGene2OffsetFile; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/newcleanupp.cpp: In member function 'void ncbi::objects::CNewCleanup_imp::x_RemoveFlankingQuotes(std::string&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/newcleanupp.cpp:5849:22: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'long unsigned int'} [-Wsign-compare] + 5849 | for( ; first_pos <= last_pos ; ++first_pos, --last_pos ) { + | ~~~~~~~~~~^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/newcleanupp.cpp:5863:19: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'long unsigned int'} [-Wsign-compare] + 5863 | if( first_pos > last_pos ) { + | ~~~~~~~~~~^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:367:10: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 367 | std::auto_ptr< CComponentVersionInfo > fmt_version; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 114 | auto_ptr m_memGi2OffsetFile; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:159:14: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 159 | std::auto_ptr< TMaskList > operator()( const sequence_type & seq ); + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 117 | auto_ptr m_memGene2GiFile; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:168:14: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 168 | std::auto_ptr< TMaskList > operator()( const sequence_type & seq, + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 449 | auto_ptr m_ConfigFile; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 108 | auto_ptr m_memGi2GeneFile; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:450:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 450 | auto_ptr m_Reg; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 111 | auto_ptr m_memGene2OffsetFile; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_prot_options.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/phiblast_prot_options.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/phiblast_prot_options.cpp:34: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 114 | auto_ptr m_memGi2OffsetFile; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 117 | auto_ptr m_memGene2GiFile; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/win_mask_gen_counts.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/win_mask_app.cpp:55: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/win_mask_util.hpp:188:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] @@ -41205,12 +41317,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1554 | static auto_ptr m_GeneInfoReader; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/win_mask_sdust_masker.hpp:40, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/win_mask_app.cpp:64: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:159:14: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] @@ -41225,41 +41331,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_prot_options.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_rps_options.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/rpstblastn_options.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/rpstblastn_options.cpp:34: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:37: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/win_mask_app.cpp: In member function 'virtual void ncbi::CWinMaskApplication::Init()': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/win_mask_app.cpp:103:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 103 | auto_ptr< CArgDescriptions > arg_desc( new CArgDescriptions ); @@ -41280,14 +41351,29 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1554 | static auto_ptr m_GeneInfoReader; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:159:14: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 159 | std::auto_ptr< TMaskList > operator()( const sequence_type & seq ); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:168:14: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 168 | std::auto_ptr< TMaskList > operator()( const sequence_type & seq, + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/prelim_stage.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/local_blast.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/local_blast.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/remote_blast.cpp:39: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -41295,7 +41381,17 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbitime.hpp:65, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_system.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/remote_blast.cpp:35: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showalign.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -41311,84 +41407,82 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_nucl_options.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/phiblast_nucl_options.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/phiblast_nucl_options.cpp:34: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/dustmasker/dust_mask_app.cpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 654 | auto_ptr m_GeneInfoReader; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 449 | auto_ptr m_ConfigFile; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:450:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 450 | auto_ptr m_Reg; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/gbloader.hpp:48, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/taxFormat.cpp:42: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/vectorscreen.hpp:42: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 108 | auto_ptr m_memGi2GeneFile; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/align_format_util.cpp:93:1: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 93 | auto_ptr CAlignFormatUtil::m_GeneInfoReader; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 111 | auto_ptr m_memGene2OffsetFile; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showdefline.cpp: In member function 'ncbi::align_format::CShowBlastDefline::SScoreInfo* ncbi::align_format::CShowBlastDefline::x_GetScoreInfo(const ncbi::objects::CSeq_align&, int)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showdefline.cpp:1465:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1465 | auto_ptr score_info(new SScoreInfo); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 114 | auto_ptr m_memGi2OffsetFile; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showdefline.cpp: In member function 'ncbi::align_format::CShowBlastDefline::SScoreInfo* ncbi::align_format::CShowBlastDefline::x_GetScoreInfoForTable(const ncbi::objects::CSeq_align_set&, int)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showdefline.cpp:1489:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1489 | auto_ptr score_info(new SScoreInfo); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 117 | auto_ptr m_memGene2GiFile; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showdefline.cpp:1491:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1491 | auto_ptr seqSetInfo( CAlignFormatUtil::GetSeqAlignSetCalcParamsFromASN(aln)); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 449 | auto_ptr m_ConfigFile; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/dustmasker/dust_mask_app.cpp:55: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:450:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 450 | auto_ptr m_Reg; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1554 | static auto_ptr m_GeneInfoReader; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/dustmasker/dust_mask_app.cpp:52: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -41396,12 +41490,7 @@ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_prot_options.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_advprot_options.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/tblastn_options.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/tblastn_options.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/pssm_engine.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -41409,10 +41498,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -41428,44 +41514,54 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showalign.cpp: In member function 'virtual void ncbi::align_format::CDisplaySeqalign::x_DisplayRowData(SAlnRowInfo*, ncbi::CNcbiOstream&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showalign.cpp:1451:69: warning: comparison of integer expressions of different signedness: 'int' and 'unsigned int' [-Wsign-compare] - 1451 | if(m_QueryAnchoredSetIndex != -1 && m_QueryAnchoredSetIndex != rowSetsCount) { - | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 449 | auto_ptr m_ConfigFile; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 743 | auto_ptr m_ObjectStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:450:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 450 | auto_ptr m_Reg; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/remote_blast.cpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/search_strategy.hpp:178:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 178 | auto_ptr m_Data; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ --DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/phiblast_prot_options.cpp -o phiblast_prot_options.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/pssm_engine.cpp -o pssm_engine.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/local_blast.cpp -o local_blast.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/remote_blast.cpp -o remote_blast.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/seqinfosrc_seqvec.cpp -o seqinfosrc_seqvec.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/seqinfosrc_seqdb.cpp -o seqinfosrc_seqdb.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showalign.cpp: In member function 'void ncbi::align_format::CDisplaySeqalign::DisplaySeqalign(ncbi::CNcbiOstream&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showalign.cpp:1926:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1926 | auto_ptr out2(CObjectOStream::Open(eSerial_AsnText, out)); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/search_strategy.hpp:181:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 181 | auto_ptr m_OptionsBuilder; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/align_format_util.cpp: In static member function 'static bool ncbi::align_format::CAlignFormatUtil::SortHitByPercentIdentityDescendingEx(const ncbi::CRef&, const ncbi::CRef&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/align_format_util.cpp:1448:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1448 | auto_ptr seqSetInfo1( CAlignFormatUtil::GetSeqAlignSetCalcParamsFromASN(*info1)); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showdefline.cpp: In member function 'ncbi::align_format::CShowBlastDefline::SScoreInfo* ncbi::align_format::CShowBlastDefline::x_GetScoreInfo(const ncbi::objects::CSeq_align&, int)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showdefline.cpp:1465:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1465 | auto_ptr score_info(new SScoreInfo); | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/align_format_util.cpp:1449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1449 | auto_ptr seqSetInfo2( CAlignFormatUtil::GetSeqAlignSetCalcParamsFromASN(*info2)); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showdefline.cpp: In member function 'ncbi::align_format::CShowBlastDefline::SScoreInfo* ncbi::align_format::CShowBlastDefline::x_GetScoreInfoForTable(const ncbi::objects::CSeq_align_set&, int)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showdefline.cpp:1489:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1489 | auto_ptr score_info(new SScoreInfo); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showdefline.cpp:1491:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1491 | auto_ptr seqSetInfo( CAlignFormatUtil::GetSeqAlignSetCalcParamsFromASN(aln)); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/dustmasker/dust_mask_app.cpp:55: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -41483,9 +41579,28 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:92:9: note: declared here 92 | fAllSeqIds NCBI_STD_DEPRECATED("This flag is no longer used in CFastaReader.") = 1<< 6, ///< Read Seq-ids past the first ^A (see note) | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showalign.cpp:2104:33: warning: catching polymorphic type 'class ncbi::CException' by value [-Wcatch-value=] - 2104 | } catch (CException e){ - | ^ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/tabular.cpp:44: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/dustmasker/dust_mask_app.cpp: In member function 'virtual void ncbi::CDustMaskApplication::Init()': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/dustmasker/dust_mask_app.cpp:83:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 83 | auto_ptr< CArgDescriptions > arg_desc( new CArgDescriptions ); @@ -41532,34 +41647,7 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/pssm_engine.cpp:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:37: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/taxFormat.cpp:43: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showalign.cpp:50: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 364 | auto_ptr &feat_ci, | ^~~~~~~~ @@ -41572,54 +41660,67 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/align_format_util.cpp: In static member function 'static ncbi::align_format::CAlignFormatUtil::SSeqAlignSetCalcParams* ncbi::align_format::CAlignFormatUtil::GetSeqAlignCalcParams(const ncbi::objects::CSeq_align&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/align_format_util.cpp:4076:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 4076 | auto_ptr seqSetInfo(new SSeqAlignSetCalcParams); +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmatch.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmix.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showalign.cpp:70: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnseq.hpp:216:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 216 | auto_ptr m_Starts; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/align_format_util.cpp: In static member function 'static ncbi::align_format::CAlignFormatUtil::SSeqAlignSetCalcParams* ncbi::align_format::CAlignFormatUtil::GetSeqAlignSetCalcParamsFromASN(const ncbi::objects::CSeq_align_set&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/align_format_util.cpp:4355:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 4355 | auto_ptr seqSetInfo(new SSeqAlignSetCalcParams); +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/simple' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/simple/simple_om.cpp -o simple_om.o +/bin/rm -f libxobjsimple.so .libxobjsimple.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libxobjsimple.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC simple_om.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lncbi_xloader_genbank -lxobjmgr -lseq -lxncbi -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libxobjsimple.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libxobjsimple.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libxobjsimple.so +/bin/ln -f .xobjsimple.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.xobjsimple.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/simple' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/simple' +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/seqinfosrc_seqvec.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/tabular.cpp:44: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showalign.cpp: In member function 'virtual void ncbi::align_format::CDisplaySeqalign::x_DisplayRowData(SAlnRowInfo*, ncbi::CNcbiOstream&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showalign.cpp:1451:69: warning: comparison of integer expressions of different signedness: 'int' and 'unsigned int' [-Wsign-compare] + 1451 | if(m_QueryAnchoredSetIndex != -1 && m_QueryAnchoredSetIndex != rowSetsCount) { + | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showalign.cpp: In member function 'void ncbi::align_format::CDisplaySeqalign::DisplaySeqalign(ncbi::CNcbiOstream&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showalign.cpp:1926:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1926 | auto_ptr out2(CObjectOStream::Open(eSerial_AsnText, out)); | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showalign.cpp: In function 'void ncbi::align_format::s_MakeDomainString(int, int, const std::string&, std::string&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showalign.cpp:4450:49: warning: comparison of integer expressions of different signedness: 'int' and 'std::__cxx11::basic_string::size_type' {aka 'long unsigned int'} [-Wsign-compare] - 4450 | for (int i = actual_first_pos, j = 0; i < domain_string.size() - 1 && j < domain_name.size(); i ++, j ++){ - | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showalign.cpp:4450:81: warning: comparison of integer expressions of different signedness: 'int' and 'std::__cxx11::basic_string::size_type' {aka 'long unsigned int'} [-Wsign-compare] - 4450 | for (int i = actual_first_pos, j = 0; i < domain_string.size() - 1 && j < domain_name.size(); i ++, j ++){ - | ~~^~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/remote_blast.cpp:39: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/seqsrc_multiseq.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/seqsrc_multiseq.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -41627,9 +41728,10 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbitime.hpp:65, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_system.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/remote_blast.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_id_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_id.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/seqsrc_multiseq.cpp:35: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -41645,29 +41747,14 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 743 | auto_ptr m_ObjectStream; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/remote_blast.cpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/search_strategy.hpp:178:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 178 | auto_ptr m_Data; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/search_strategy.hpp:181:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 181 | auto_ptr m_OptionsBuilder; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/seqinfosrc_seqvec.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showalign.cpp:2104:33: warning: catching polymorphic type 'class ncbi::CException' by value [-Wcatch-value=] + 2104 | } catch (CException e){ + | ^ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_setup.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/seqsrc_seqdb.cpp:39: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -41675,7 +41762,10 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_id_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_id.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/seqsrc_seqdb.cpp:34: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -41691,23 +41781,9 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/seqsrc_multiseq.cpp: In function 'BlastSeqSrc* ncbi::blast::MultiSeqBlastSeqSrcInit(TSeqLocVector&, EBlastProgramType, bool)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/seqsrc_multiseq.cpp:562:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 562 | auto_ptr args | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -41732,12 +41808,21 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 528 | mutable auto_ptr m_AnnotNames; | ^~~~~~~~ @@ -41781,49 +41866,31 @@ /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/seqsrc_query_factory.cpp -o seqsrc_query_factory.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/bl2seq.cpp -o bl2seq.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_objmgr_tools.cpp -o blast_objmgr_tools.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/seqsrc_multiseq.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/seqsrc_multiseq.cpp:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_id_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_id.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/seqsrc_multiseq.cpp:35: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr//build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/seqsrc_multiseq.cpp: In function 'BlastSeqSrc* ncbi::blast::MultiSeqBlastSeqSrcInit(TSeqLocVector&, EBlastProgramType, bool)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/seqsrc_multiseq.cpp:562:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 562 | auto_ptr args +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showalign.cpp: In function 'void ncbi::align_format::s_MakeDomainString(int, int, const std::string&, std::string&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showalign.cpp:4450:49: warning: comparison of integer expressions of different signedness: 'int' and 'std::__cxx11::basic_string::size_type' {aka 'long unsigned int'} [-Wsign-compare] + 4450 | for (int i = actual_first_pos, j = 0; i < domain_string.size() - 1 && j < domain_name.size(); i ++, j ++){ + | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showalign.cpp:4450:81: warning: comparison of integer expressions of different signedness: 'int' and 'std::__cxx11::basic_string::size_type' {aka 'long unsigned int'} [-Wsign-compare] + 4450 | for (int i = actual_first_pos, j = 0; i < domain_string.size() - 1 && j < domain_name.size(); i ++, j ++){ + | ~~^~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_setup.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/seqsrc_seqdb.cpp:39: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/seqsrc_query_factory.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/seqsrc_query_factory.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -41831,10 +41898,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_id_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_id.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/seqsrc_seqdb.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -41888,44 +41952,13 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/dustmasker' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=dustmasker /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/dustmasker/main.cpp -o main.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=dustmasker /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/dustmasker/dust_mask_app.cpp -o dust_mask_app.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie main.o dust_mask_app.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxalgodustmask -lseqmasks_io -lxobjread -lvariation -lsubmit -lxlogging -lxobjutil -lseqdb -lblastdb -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o dustmasker -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f dustmasker /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f dustmasker /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/dustmasker -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/dustmasker' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/dustmasker' -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/seqsrc_query_factory.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/seqsrc_query_factory.cpp:34: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:37: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, +share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/repeats_filter_cxx.cpp -o repeats_filter_cxx.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_mtlock.cpp -o blast_mtlock.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/psibl2seq.cpp -o psibl2seq.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/local_db_adapter.cpp -o local_db_adapter.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/psiblast.cpp -o psiblast.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/psiblast_impl.cpp -o psiblast_impl.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_objmgr_tools.cpp:34: @@ -41953,13 +41986,15 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/repeats_filter_cxx.cpp -o repeats_filter_cxx.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_mtlock.cpp -o blast_mtlock.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/psibl2seq.cpp -o psibl2seq.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/local_db_adapter.cpp -o local_db_adapter.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/psiblast.cpp -o psiblast.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/psiblast_impl.cpp -o psiblast_impl.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/dustmasker' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=dustmasker /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/dustmasker/main.cpp -o main.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=dustmasker /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/dustmasker/dust_mask_app.cpp -o dust_mask_app.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie main.o dust_mask_app.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxalgodustmask -lseqmasks_io -lxobjread -lvariation -lsubmit -lxlogging -lxobjutil -lseqdb -lblastdb -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o dustmasker +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f dustmasker /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f dustmasker /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/dustmasker +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/dustmasker' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/dustmasker' +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_objmgr_tools.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] @@ -41996,6 +42031,20 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/dust_filter.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_objmgr_tools.cpp:51: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:159:14: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 159 | std::auto_ptr< TMaskList > operator()( const sequence_type & seq ); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:168:14: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 168 | std::auto_ptr< TMaskList > operator()( const sequence_type & seq, + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: @@ -42017,27 +42066,13 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/dust_filter.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_objmgr_tools.cpp:51: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:159:14: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 159 | std::auto_ptr< TMaskList > operator()( const sequence_type & seq ); - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:168:14: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 168 | std::auto_ptr< TMaskList > operator()( const sequence_type & seq, - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/psibl2seq.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/psibl2seq.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/psiblast.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/psiblast.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -42045,8 +42080,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_types.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:39: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -42065,10 +42099,12 @@ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/local_db_adapter.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/local_db_adapter.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_prot_options.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_advprot_options.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/psiblast_options.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/psiblast_iteration.cpp:37: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -42076,8 +42112,10 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_types.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:39: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_id_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_id.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/psiblast_iteration.cpp:34: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -42093,13 +42131,20 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=writedb_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/unit_test/writedb_unit_test.cpp -o writedb_unit_test.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=writedb_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/unit_test/criteria_unit_test.cpp -o criteria_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie writedb_unit_test.o criteria_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lwritedb -lseqdb -lxobjread -lvariation -lsubmit -lxlogging -lxobjutil -lblastdb -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o writedb_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f writedb_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f writedb_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/writedb_unit_test +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/psiblast.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/psiblast.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/psibl2seq.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/psibl2seq.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -42107,7 +42152,8 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_types.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:39: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -42123,11 +42169,14 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/psi_pssm_input.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/psi_pssm_input.cpp:38: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/local_db_adapter.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/local_db_adapter.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -42135,9 +42184,20 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/psi_pssm_input.hpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_types.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:39: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -42171,27 +42231,11 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_prot_options.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_advprot_options.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/psiblast_options.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/psiblast_iteration.cpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/psi_pssm_input.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/psi_pssm_input.cpp:38: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -42199,10 +42243,9 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_id_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_id.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/psiblast_iteration.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/psi_pssm_input.hpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -42218,13 +42261,7 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -ible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/psiblast_iteration.cpp -o psiblast_iteration.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/psi_pssm_input.cpp -o psi_pssm_input.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/msa_pssm_input.cpp -o msa_pssm_input.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/psiblast_aux_priv.cpp -o psiblast_aux_priv.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_aux_priv.cpp -o blast_aux_priv.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_advprot_options.cpp -o blast_advprot_options.o -/usr/bin/g++ -std=gnIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/msa_pssm_input.hpp:39, @@ -42308,7 +42345,13 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/msa_pssm_input.cpp:376:22: warning: comparison of integer expressions of different signedness: 'int' and 'Uint4' {aka 'unsigned int'} [-Wsign-compare] 376 | while (k < m_Msa->dimensions->query_length && | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -u++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blastp_kmer_options.cpp -o blastp_kmer_options.o +ible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/psiblast_iteration.cpp -o psiblast_iteration.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/psi_pssm_input.cpp -o psi_pssm_input.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/msa_pssm_input.cpp -o msa_pssm_input.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/psiblast_aux_priv.cpp -o psiblast_aux_priv.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_aux_priv.cpp -o blast_aux_priv.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_advprot_options.cpp -o blast_advprot_options.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blastp_kmer_options.cpp -o blastp_kmer_options.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/version.cpp -o version.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/dust_filter.cpp -o dust_filter.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/rps_aux.cpp -o rps_aux.o @@ -42316,11 +42359,9 @@ /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/setup_factory.cpp -o In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_prot_options.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_advprot_options.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_advprot_options.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_aux_priv.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_aux_priv.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -42328,10 +42369,9 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_aux_priv.hpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -42354,8 +42394,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_prot_options.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_advprot_options.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blastp_kmer_options.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blastp_kmer_options.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_advprot_options.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -42384,10 +42423,32 @@ | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/dust_filter.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/dust_filter.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_loc_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_loc.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/dust_filter.hpp:38: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_aux_priv.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_aux_priv.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_prot_options.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_advprot_options.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blastp_kmer_options.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blastp_kmer_options.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -42395,9 +42456,10 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_aux_priv.hpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -42413,31 +42475,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -setup_factory.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/prelim_stage.cpp -o prelim_stage.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/traceback_stage.cpp -o traceback_stage.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/uniform_search.cpp -o uniform_search.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/local_search.cpp -o local_search.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_results.cpp -o blast_results.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/dust_filter.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/dust_filter.cpp:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_loc_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_loc.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/dust_filter.hpp:38: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ @@ -42450,21 +42487,25 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=writedb_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/unit_test/writedb_unit_test.cpp -o writedb_unit_test.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=writedb_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/unit_test/criteria_unit_test.cpp -o criteria_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie writedb_unit_test.o criteria_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lwritedb -lseqdb -lxobjread -lvariation -lsubmit -lxlogging -lxobjutil -lblastdb -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o writedb_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f writedb_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f writedb_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/writedb_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test' +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/dust_filter.hpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:159:14: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 159 | std::auto_ptr< TMaskList > operator()( const sequence_type & seq ); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:168:14: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 168 | std::auto_ptr< TMaskList > operator()( const sequence_type & seq, + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/traceback_stage.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/traceback_stage.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/search_strategy.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/search_strategy.cpp:37: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -42472,7 +42513,9 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbitime.hpp:65, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_system.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/search_strategy.cpp:35: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -42488,6 +42531,16 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/dust_filter.cpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, @@ -42517,39 +42570,20 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/dust_filter.hpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:159:14: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 159 | std::auto_ptr< TMaskList > operator()( const sequence_type & seq ); - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:168:14: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 168 | std::auto_ptr< TMaskList > operator()( const sequence_type & seq, - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/traceback_stage.cpp: In member function 'ncbi::CRef ncbi::blast::CBlastTracebackSearch::Run()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/traceback_stage.cpp:226:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 226 | auto_ptr omp_env; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 743 | auto_ptr m_ObjectStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/traceback_stage.cpp: In member function 'BlastHSPResults* ncbi::blast::CBlastTracebackSearch::RunSimple()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/traceback_stage.cpp:329:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 329 | auto_ptr omp_env; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/search_strategy.hpp:178:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 178 | auto_ptr m_Data; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/dust_filter.cpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/search_strategy.hpp:181:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 181 | auto_ptr m_OptionsBuilder; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -42566,7 +42600,13 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, +setup_factory.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/prelim_stage.cpp -o prelim_stage.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/traceback_stage.cpp -o traceback_stage.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/uniform_search.cpp -o uniform_search.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/local_search.cpp -o local_search.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_results.cpp -o blast_results.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, @@ -42599,39 +42639,10 @@ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/uniform_search.cpp:34: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_types.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:39: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/search_strategy.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/search_strategy.cpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/traceback_stage.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/traceback_stage.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -42639,9 +42650,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbitime.hpp:65, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_system.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/search_strategy.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -42685,26 +42694,12 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/local_search.cpp:46: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/Pssm_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/Pssm.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/local_search.cpp:38: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_results.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/uniform_search.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -42712,7 +42707,8 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_types.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:39: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -42728,20 +42724,16 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 743 | auto_ptr m_ObjectStream; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/search_strategy.hpp:178:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 178 | auto_ptr m_Data; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/traceback_stage.cpp: In member function 'ncbi::CRef ncbi::blast::CBlastTracebackSearch::Run()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/traceback_stage.cpp:226:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 226 | auto_ptr omp_env; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/search_strategy.hpp:181:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 181 | auto_ptr m_OptionsBuilder; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/traceback_stage.cpp: In member function 'BlastHSPResults* ncbi::blast::CBlastTracebackSearch::RunSimple()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/traceback_stage.cpp:329:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 329 | auto_ptr omp_env; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -42750,12 +42742,15 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/local_search.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/local_search.cpp:49: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_results.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -42771,6 +42766,21 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/local_search.cpp:46: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/Pssm_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/Pssm.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/local_search.cpp:38: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, @@ -42805,13 +42815,31 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_search.hpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 743 | auto_ptr m_ObjectStream; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/local_search.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/local_search.cpp:49: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, @@ -42846,7 +42874,14 @@ /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/objmgrfree_query_data.cpp -o objmgrfree_query_data.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/bioseq_extract_data_priv.cpp -o bioseq_extract_data_priv.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/effsearchspace_calc.cpp -o effsearchspace_calc.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/incIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/incIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_search.hpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 743 | auto_ptr m_ObjectStream; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, @@ -42873,11 +42908,33 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/objmgr_query_data.cpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/objmgrfree_query_data.cpp:38: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/bioseq_extract_data_priv.cpp:38: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -42908,7 +42965,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/bioseq_extract_data_priv.cpp:38: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/objmgrfree_query_data.cpp:38: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -43029,46 +43086,41 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/objmgr_query_data.cpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/effsearchspace_calc.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/effsearchspace_calc.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/effsearchspace_calc.hpp:36: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ - -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_seqinfosrc_aux.cpp -o blast_seqinfosrc_aux.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_dbindex.cpp -o blast_dbindex.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/split_query_cxx.cpp -o split_query_cxx.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/split_query_aux_priv.cpp -o split_query_aux_priv.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/split_query_blk.cpp -o split_query_blk.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/winmask_filter.cpp -o winmask_filter.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/seqdb_reader' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=seqdb_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/seqdb_reader/seqdb_unit_test.cpp -o seqdb_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie seqdb_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lseqdb -lwritedb -lxobjutil -lblastdb -lxobjread -lvariation -lsubmit -lxlogging -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -llmdb -lpthread -lm -lpthread -o seqdb_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f seqdb_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f seqdb_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/seqdb_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/seqdb_reader' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/effsearchspace_calc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/effsearchspace_calc.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_seqinfosrc.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_seqinfosrc_aux.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_seqinfosrc_aux.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -43076,7 +43128,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/effsearchspace_calc.hpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_seqinfosrc_aux.hpp:38: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -43092,8 +43144,13 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/seqdb_reader' -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, + -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_seqinfosrc_aux.cpp -o blast_seqinfosrc_aux.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_dbindex.cpp -o blast_dbindex.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/split_query_cxx.cpp -o split_query_cxx.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/split_query_aux_priv.cpp -o split_query_aux_priv.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/split_query_blk.cpp -o split_query_blk.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/winmask_filter.cpp -o winmask_filter.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -DIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/rpsblast_local.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) @@ -43232,6 +43289,78 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/winmask_filter.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/winmask_filter.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:37: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/split_query.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/split_query_cxx.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:37: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/seqdb_reader' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=seqdb_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/seqdb_reader/seqdb_unit_test.cpp -o seqdb_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie seqdb_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lseqdb -lwritedb -lxobjutil -lblastdb -lxobjread -lvariation -lsubmit -lxlogging -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -llmdb -lpthread -lm -lpthread -o seqdb_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f seqdb_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f seqdb_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/seqdb_unit_test +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/seqdb_reader' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/seqdb_reader' +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/simple/simple_om.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/split_query_cxx.cpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ -path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/vectorscreen.cpp -o vectorscreen.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLASTFORMAT -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/seqalignfilter.cpp -o seqalignfilter.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLASTFORMAT -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/taxFormat.cpp -o taxFormat.o @@ -43249,9 +43378,10 @@ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_seqinfosrc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_seqinfosrc_aux.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_seqinfosrc_aux.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/split_query.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/split_query_aux_priv.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/split_query_blk.cpp:37: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -43259,7 +43389,10 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_seqinfosrc_aux.hpp:38: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/split_query_blk.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/split_query_blk.cpp:34: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -43278,10 +43411,46 @@ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/align_format/unit_test' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/align_format/unit_test' +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/winmask_filter.cpp:45: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/split_query_cxx.cpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/align_format/unit_test' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/align_format/unit_test' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/subj_ranges_set.cpp -o subj_ranges_set.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/rpsblast_local.cpp -o rpsblast_local.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/seedtop.cpp -o seedtop.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/cdd_pssm_input.cpp -o cdd_pssm_input.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/deltablast_options.cpp -o deltablast_options.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/deltablast.cpp -o deltablast.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE6make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/align_format/unit_test' /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test TMPL=align_format_unit_test -w -j12 --jobserver-auth=7,8 all +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/split_query_cxx.cpp: In member function 'void ncbi::blast::CQuerySplitter::x_ComputeQueryContextsForChunks()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/split_query_cxx.cpp:344:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 344 | auto_ptr qdpc; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/align_format/unit_test' /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=align_format_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/showdefline_unit_test.cpp -o showdefline_unit_test.o @@ -43289,38 +43458,21 @@ /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=align_format_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/blast_test_util.cpp -o blast_test_util.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=align_format_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/vectorscreen_unit_test.cpp -o vectorscreen_unit_test.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=align_format_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/tabularinof_unit_test.cpp -o tabularinof_unit_test.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbiIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/split_query.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/split_query_cxx.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:37: +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/vectorscreen_unit_test.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/tabularinof_unit_test.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -43429,42 +43581,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/split_query.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/split_query_aux_priv.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/split_query_blk.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/split_query_blk.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/split_query_blk.cpp:34: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/tabularinof_unit_test.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/blast_test_util.cpp:60: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -43575,7 +43694,7 @@ | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/showalign_unit_test.cpp:48: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/vectorscreen_unit_test.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -43684,9 +43803,17 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:367:10: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 367 | std::auto_ptr< CComponentVersionInfo > fmt_version; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/aln_printer_unit_test.cpp:51: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/showdefline_unit_test.cpp:44: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -43795,11 +43922,27 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:76: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/showdefline_unit_test.cpp:44: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/showalign_unit_test.cpp:48: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -43908,55 +44051,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:76: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/winmask_filter.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/winmask_filter.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:37: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/blast_test_util.cpp:60: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/aln_printer_unit_test.cpp:51: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -44065,101 +44162,14 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/simple/simple_om.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/split_query_cxx.cpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/winmask_filter.cpp:45: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/split_query_cxx.cpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/split_query_cxx.cpp: In member function 'void ncbi::blast::CQuerySplitter::x_ComputeQueryContextsForChunks()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/split_query_cxx.cpp:344:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 344 | auto_ptr qdpc; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/subj_ranges_set.cpp -o subj_ranges_set.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/rpsblast_local.cpp -o rpsblast_local.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/seedtop.cpp -o seedtop.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/cdd_pssm_input.cpp -o cdd_pssm_input.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/deltablast_options.cpp -o deltablast_options.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/deltablast.cpp -o deltablast.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE6In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/tabularinof_unit_test.cpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/blastdb/bdbloader.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/blast_test_util.hpp:49, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/blast_test_util.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/blast_test_util.hpp:41: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:367:10: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 367 | std::auto_ptr< CComponentVersionInfo > fmt_version; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/seedtop.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/seedtop.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/prelim_stage.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/local_blast.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/rpsblast_local.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -44167,7 +44177,10 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/seedtop.hpp:42: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbitime.hpp:65, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_system.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbifile.hpp:53, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/rpsblast_local.cpp:34: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -44183,19 +44196,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/vectorscreen_unit_test.cpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_node.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] @@ -44309,11 +44309,13 @@ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/prelim_stage.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/local_blast.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/rpsblast_local.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_prot_options.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_advprot_options.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/psiblast_options.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/deltablast_options.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/deltablast_options.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -44321,10 +44323,10 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbitime.hpp:65, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_system.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbifile.hpp:53, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/rpsblast_local.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -44342,10 +44344,19 @@ | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/tabularinof_unit_test.cpp:41: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/cdd_pssm_input.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/cdd_pssm_input.cpp:38: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/cdd_pssm_input.hpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -44363,11 +44374,17 @@ | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/blast_test_util.cpp:46: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/seedtop.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/seedtop.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/seedtop.hpp:42: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -44383,12 +44400,53 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/vectorscreen_unit_test.cpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/blastdb/bdbloader.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/blast_test_util.hpp:49, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/blast_test_util.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/blast_test_util.hpp:41: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/vectorscreen_unit_test.cpp:41: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_explorer.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmap.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnvec.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:46, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/showalign_unit_test.cpp:43: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbitime.hpp:65, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_system.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbifile.hpp:53, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/showalign_unit_test.cpp:35: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -44404,78 +44462,69 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/tabularinof_unit_test.cpp:42: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/tabularinof_unit_test.cpp:46: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 108 | auto_ptr m_memGi2GeneFile; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/magicblast_options.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/magicblast_options.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 111 | auto_ptr m_memGene2OffsetFile; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 114 | auto_ptr m_memGi2OffsetFile; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 117 | auto_ptr m_memGene2GiFile; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/aln_printer_unit_test.cpp:43: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbitime.hpp:65, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_system.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbifile.hpp:53, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/aln_printer_unit_test.cpp:35: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1554 | static auto_ptr m_GeneInfoReader; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/request_result.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/reader_id2_base.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/id2/reader_id2.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/blast_test_util.cpp:49: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/vectorscreen_unit_test.cpp:42: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/vectorscreen_unit_test.cpp:46: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:48: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 108 | auto_ptr m_memGi2GeneFile; | ^~~~~~~~ @@ -44500,6 +44549,7 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:49: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 1554 | static auto_ptr m_GeneInfoReader; | ^~~~~~~~ @@ -44508,23 +44558,10 @@ | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_explorer.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmap.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnvec.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:46, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/showalign_unit_test.cpp:43: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/vectorscreen_unit_test.cpp:41: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbitime.hpp:65, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_system.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbifile.hpp:53, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/showalign_unit_test.cpp:35: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -44540,59 +44577,56 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/vectorscreen_unit_test.cpp: In static member function 'static void vectorscreen::CVecscreenTest::VecscreenDisplay()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/vectorscreen_unit_test.cpp:93:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 93 | auto_ptr in(CObjectIStream::Open(eSerial_AsnText, is)); - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:48: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 108 | auto_ptr m_memGi2GeneFile; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:51: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 111 | auto_ptr m_memGene2OffsetFile; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 654 | auto_ptr m_GeneInfoReader; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 114 | auto_ptr m_memGi2OffsetFile; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/psiblast.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/deltablast.cpp:34: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 117 | auto_ptr m_memGene2GiFile; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/blast_test_util.cpp:46: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:49: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1554 | static auto_ptr m_GeneInfoReader; - | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/aln_printer_unit_test.cpp:43: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbitime.hpp:65, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_system.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbifile.hpp:53, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/aln_printer_unit_test.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -44608,134 +44642,112 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:51: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/gbloader.hpp:48, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/aln_printer_unit_test.cpp:47: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/showdefline_unit_test.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/tabularinof_unit_test.cpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbictype.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistre.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_stack.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidbg.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbimisc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiexpt.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/showdefline_unit_test.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/aln_printer_unit_test.cpp:48: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/request_result.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/reader_id2_base.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/id2/reader_id2.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/blast_test_util.cpp:49: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 654 | auto_ptr m_GeneInfoReader; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/vectorscreen_unit_test.cpp:42: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/magicblast_options.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/magicblast_options.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/vectorscreen_unit_test.cpp:46: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 108 | auto_ptr m_memGi2GeneFile; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 111 | auto_ptr m_memGene2OffsetFile; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/cdd_pssm_input.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/cdd_pssm_input.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 114 | auto_ptr m_memGi2OffsetFile; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/cdd_pssm_input.hpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_prot_options.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_advprot_options.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/psiblast_options.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/deltablast_options.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/deltablast_options.cpp:34: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 117 | auto_ptr m_memGene2GiFile; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1554 | static auto_ptr m_GeneInfoReader; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/showdefline_unit_test.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbictype.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistre.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_stack.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidbg.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbimisc.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiexpt.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/showdefline_unit_test.cpp:34: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -44754,10 +44766,8 @@ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/prelim_stage.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/magicblast.cpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_node.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -44765,10 +44775,11 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/general/User_object_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/general/User_object.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/magicblast.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -44784,6 +44795,34 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/vectorscreen_unit_test.cpp: In static member function 'static void vectorscreen::CVecscreenTest::VecscreenDisplay()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/vectorscreen_unit_test.cpp:93:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 93 | auto_ptr in(CObjectIStream::Open(eSerial_AsnText, is)); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:48, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/blast_test_util.cpp:55: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] @@ -44810,11 +44849,8 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/gbloader.hpp:48, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/aln_printer_unit_test.cpp:47: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 743 | auto_ptr m_ObjectStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -44832,36 +44868,38 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/tabularinof_unit_test.cpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_node.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/psiblast.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/deltablast.cpp:34: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 108 | auto_ptr m_memGi2GeneFile; @@ -44885,18 +44923,35 @@ 117 | auto_ptr m_memGene2GiFile; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | templCAnnotMappingCollector> m_MappingCollector; + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1554 | static auto_ptr m_GeneInfoReader; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/prelim_stage.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/magicblast.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/general/User_object_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/general/User_object.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/magicblast.cpp:35: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -ate class auto_ptr; - | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ @@ -44909,110 +44964,65 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1554 | static auto_ptr m_GeneInfoReader; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 449 | auto_ptr m_ConfigFile; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:450:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 450 | auto_ptr m_Reg; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/aln_printer_unit_test.cpp:48: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_node.cpp:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 449 | auto_ptr m_ConfigFile; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:450:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 450 | auto_ptr m_Reg; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/tabularinof_unit_test.cpp:42: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 743 | auto_ptr m_ObjectStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/showdefline_unit_test.cpp: In static member function 'static void showdefline::CShowBlastDeflineTest::GetDeflineInfo(TestUtil::CBlastOM::ELocation)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/showdefline_unit_test.cpp:74:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 74 | auto_ptr in(CObjectIStream::Open(eSerial_AsnText, is)); - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/showdefline_unit_test.cpp:99:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 99 | auto_ptr - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/tabularinof_unit_test.cpp:46: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 108 | auto_ptr m_memGi2GeneFile; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/showdefline_unit_test.cpp:101:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 101 | auto_ptr - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 111 | auto_ptr m_memGene2OffsetFile; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_node.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 114 | auto_ptr m_memGi2OffsetFile; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 117 | auto_ptr m_memGene2GiFile; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -45058,21 +45068,71 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_node.cpp:202:49: note: in expansion of macro 'INFO_POST' 202 | INFO_POST("Chunk #" << chunk_num << " completed in " << s.AsSmartString()); | ^~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1554 | static auto_ptr m_GeneInfoReader; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/showdefline_unit_test.cpp: In static member function 'static void showdefline::CShowBlastDeflineTest::GetDeflineInfo(TestUtil::CBlastOM::ELocation)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/showdefline_unit_test.cpp:74:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 74 | auto_ptr in(CObjectIStream::Open(eSerial_AsnText, is)); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/showdefline_unit_test.cpp:99:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 99 | auto_ptr + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/showdefline_unit_test.cpp:101:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 101 | auto_ptr + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ 4_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/magicblast_options.cpp -o magicblast_options.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/magicblast.cpp -o magicblast.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_node.cpp -o blast_node.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_usage_report.cpp -o blast_usage_report.o /bin/rm -f libxblast.so .libxblast.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libxblast.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC blast_aux.o blast_options_cxx.o blast_options_local_priv.o blast_options_builder.o blast_setup_cxx.o blast_seqalign.o blast_options_handle.o blast_nucl_options.o disc_nucl_options.o blast_prot_options.o psiblast_options.o blast_rps_options.o blastx_options.o tblastx_options.o tblastn_options.o rpstblastn_options.o phiblast_nucl_options.o phiblast_prot_options.o pssm_engine.o local_blast.o remote_blast.o seqinfosrc_seqvec.o seqinfosrc_seqdb.o seqinfosrc_bioseq.o seqsrc_multiseq.o seqsrc_seqdb.o seqsrc_query_factory.o bl2seq.o blast_objmgr_tools.o repeats_filter_cxx.o blast_mtlock.o psibl2seq.o local_db_adapter.o psiblast.o psiblast_impl.o psiblast_iteration.o psi_pssm_input.o msa_pssm_input.o psiblast_aux_priv.o blast_aux_priv.o blast_advprot_options.o blastp_kmer_options.o version.o dust_filter.o rps_aux.o search_strategy.o setup_factory.o prelim_stage.o traceback_stage.o uniform_search.o local_search.o blast_results.o remote_search.o query_data.o objmgr_query_data.o objmgrfree_query_data.o bioseq_extract_data_priv.o effsearchspace_calc.o blast_seqinfosrc_aux.o blast_dbindex.o split_query_cxx.o split_query_aux_priv.o split_query_blk.o winmask_filter.o subj_ranges_set.o rpsblast_local.o seedtop.o cdd_pssm_input.o deltablast_options.o deltablast.o magicblast_options.o magicblast.o blast_node.o blast_usage_report.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lblast -lseqdb -lseqset -lseq -lgeneral -lxser -lxconnect -lsequtil -ltables -lxutil -lxncbi -llmdb -lpthread -lm -lpthread +/usr/bin/g++ -std=gnu++14 -shared -o libxblast.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC blast_aux.o blast_options_cxx.o blast_options_local_priv.o blast_options_builder.o blast_setup_cxx.o blast_seqalign.o blast_options_handle.o blast_nucl_options.o disc_nucl_options.o blast_prot_options.o psiblast_options.o blast_rps_options.o blastx_options.o tblastx_options.o tblastn_options.o rpstblastn_options.o phiblast_nucl_options.o phiblast_prot_options.o pssm_engine.o local_blast.o remote_blast.o seqinfosrc_seqvec.o seqinfosrc_seqdb.o seqinfosrc_bioseq.o seqsrc_multiseq.o seqsrc_seqdb.o seqsrc_query_factory.o bl2seq.o blast_objmgr_tools.o repeats_filter_cxx.o blast_mtlock.o psibl2seq.o local_db_adapter.o psiblast.o psiblast_impl.o psiblast_iteration.o psi_pssm_input.o msa_pssm_input.o psiblast_aux_priv.o blast_aux_priv.o blast_advprot_options.o blastp_kmer_options.o version.o dust_filter.o rps_aux.o search_strategy.o setup_factory.o prelim_stage.o traceback_stage.o uniform_search.o local_search.o blast_results.o remote_search.o query_data.o objmgr_query_data.o objmgrfree_query_data.o bioseq_extract_data_priv.o effsearchspace_calc.o blast_seqinfosrc_aux.o blast_dbindex.o split_query_cxx.o split_query_aux_priv.o split_query_blk.o winmask_filter.o subj_ranges_set.o rpsblast_local.o seedtop.o cdd_pssm_input.o deltablast_options.o deltablast.o magicblast_options.o magicblast.o blast_node.o blast_usage_report.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible/c++/src/objtools/cleanup/cleanup_message.cpp -o cleanup_message.o +/bin/rm -f libxcleanup.so .libxcleanup.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libxcleanup.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC autogenerated_cleanup.o autogenerated_extended_cleanup.o cleanup.o cleanup_utils.o gene_qual_normalization.o cleanup_user_object.o cleanup_author.o cleanup_pub.o newcleanupp.o capitalization_string.o fix_feature_id.o cleanup_message.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxobjutil -lvalid -lxregexp -lregexp -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libxcleanup.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libxcleanup.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libxcleanup.so +/bin/ln -f .xcleanup.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.xcleanup.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/cleanup' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/cleanup' +cd objtools/format/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=xformat UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/format' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/format' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/format' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/format' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/format' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format TMPL=xformat -w -j12 --jobserver-auth=7,8 all +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lblast -lseqdb -lseqset -lseq -lgeneral -lxser -lxconnect -lsequtil -ltables -lxutil -lxncbi -llmdb -lpthread -lm -lpthread /bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libxblast.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib /bin/ln -f libxblast.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libxblast.so /bin/ln -f .xblast.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.xblast.dep make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/api' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/api' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/format' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/accession_item.cpp -o accession_item.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/basecount_item.cpp -o basecount_item.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/comment_item.cpp -o comment_item.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/contig_item.cpp -o contig_item.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/date_item.cpp -o date_item.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/dbsource_make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/api' cd algo/blast/blastinput/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=blastinput UNIX_PROJ="" sources= configurables=configurables.null -cd algo/blast/proteinkmer/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=proteinkmer UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/blastinput' make[4]: warning: -j12 forced in submake: resetting jobserver mode. +cd algo/blast/proteinkmer/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=proteinkmer UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer' make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/blastinput' @@ -45080,9 +45140,9 @@ make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/blastinput' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/blastinput' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/blastinput' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer' make[5]: warning: -j12 forced in submake: resetting jobserver mode. @@ -45110,7 +45170,7 @@ /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/blastx_args.cpp -o blastx_args.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/tblastn_args.cpp -o tblastn_args.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/kblastapi.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/blastkmerutils.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -45219,8 +45279,17 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/mhfile.cpp:84: warning: ignoring '#pragma ivdep ' [-Wunknown-pragmas] + 84 | #pragma ivdep + | +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/mhfile.cpp:91: warning: ignoring '#pragma ivdep ' [-Wunknown-pragmas] + 91 | #pragma ivdep + | +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/mhfile.cpp:98: warning: ignoring '#pragma ivdep ' [-Wunknown-pragmas] + 98 | #pragma ivdep + | In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/blastkmerutils.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/kblastapi.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -45329,15 +45398,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/mhfile.cpp:84: warning: ignoring '#pragma ivdep ' [-Wunknown-pragmas] - 84 | #pragma ivdep - | -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/mhfile.cpp:91: warning: ignoring '#pragma ivdep ' [-Wunknown-pragmas] - 91 | #pragma ivdep - | -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/mhfile.cpp:98: warning: ignoring '#pragma ivdep ' [-Wunknown-pragmas] - 98 | #pragma ivdep - | /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/blastkmerutils.cpp:447: warning: ignoring '#pragma ivdep ' [-Wunknown-pragmas] 447 | #pragma ivdep | @@ -45372,10 +45432,10 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/mhfile.cpp:77:25: warning: comparison of integer expressions of different signedness: 'std::vector::size_type' {aka 'long unsigned int'} and 'int' [-Wsign-compare] 77 | if (hits.size() < numHashes) | ~~~~~~~~~~~~^~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/blast_scope_src.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmerutils.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/blastkmerutils.cpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/mhfile.hpp:175:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 175 | auto_ptr m_MmappedIndex; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, @@ -45383,68 +45443,57 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:45: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/kblastapi.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/mhfile.hpp:178:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 178 | auto_ptr m_MmappedData; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmerutils.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/blastkmerutils.cpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/mhfile.hpp:175:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 175 | auto_ptr m_MmappedIndex; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blastn_args.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/blastn_args.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:38: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/mhfile.hpp:178:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 178 | auto_ptr m_MmappedData; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/blastkmerutils.cpp: In function 'void ncbi::neighbor_query(const std::vector >&, const uint64_t*, std::vector >&, blast::CMinHashFile&, int, int, double, TBlastKmerPrelimScoreVector&, BlastKmerStats&, int)': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/blastkmerutils.cpp:807:38: warning: comparison of integer expressions of different signedness: 'int' and 'unsigned int' [-Wsign-compare] 807 | if (last_oid == *i) | ~~~~~~~~~^~~~~ -/c++/src/objtools/cleanup/cleanup_message.cpp -o cleanup_message.o -/bin/rm -f libxcleanup.so .libxcleanup.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libxcleanup.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC autogenerated_cleanup.o autogenerated_extended_cleanup.o cleanup.o cleanup_utils.o gene_qual_normalization.o cleanup_user_object.o cleanup_author.o cleanup_pub.o newcleanupp.o capitalization_string.o fix_feature_id.o cleanup_message.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxobjutil -lvalid -lxregexp -lregexp -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libxcleanup.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libxcleanup.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libxcleanup.so -/bin/ln -f .xcleanup.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.xcleanup.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/cleanup' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/tblastx_args.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/tblastx_args.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/blastkmer.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -45452,7 +45501,10 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:38: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/util/sequtil/sequtil_convert.hpp:34, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/blastkmer.cpp:34: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -45468,18 +45520,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/cleanup' -cd objtools/format/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=xformat UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/format' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/format' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/format' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/format' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/format' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format TMPL=xformat -w -j12 --jobserver-auth=7,8 all -make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 65 | auto_ptr m_FileStream; @@ -45487,13 +45527,23 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/format' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/accession_item.cpp -o accession_item.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/basecount_item.cpp -o basecount_item.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/comment_item.cpp -o comment_item.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/contig_item.cpp -o contig_item.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/date_item.cpp -o date_item.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/dbsource_/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/mapped_feat.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/feature.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:48, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/contig_item.cpp:45: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/contig_item.cpp:33: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 156 | auto_ptr m_DecompressIStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here @@ -45505,16 +45555,59 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 875 | auto_ptr m_DecompressIStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/kblastapi.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/blast_scope_src.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:45: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/blastkmer.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/basecount_item.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -45522,16 +45615,23 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/util/sequtil/sequtil_convert.hpp:34, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/blastkmer.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/basecount_item.cpp:33: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmerresults.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmer.hpp:45, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/blastkmer.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -45541,12 +45641,33 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:49: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmerutils.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmerresults.hpp:46: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/mhfile.hpp:175:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 175 | auto_ptr m_MmappedIndex; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/mhfile.hpp:178:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 178 | auto_ptr m_MmappedData; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmerindex.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/blastkmerindex.cpp:91: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/mapped_feat.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/feature.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:48, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/date_item.cpp:43: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -45554,7 +45675,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmerindex.hpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/date_item.cpp:33: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -45576,8 +45697,8 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:40, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blastn_args.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/blastn_args.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blastp_args.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/blastp_args.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -45589,14 +45710,38 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 322 | auto_ptr m_pOpticalMapPointsDestroyer; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 479 | auto_ptr m_Selector; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:40, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/rmblastn_args.hpp:21, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/rmblastn_args.cpp:20: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/tblastx_args.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/tblastx_args.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -45620,6 +45765,22 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmerresults.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/blastkmerresults.cpp:34: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmerresults.hpp:37: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ @@ -45632,25 +45793,90 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmerutils.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmerindex.hpp:44: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/mhfile.hpp:175:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 175 | auto_ptr m_MmappedIndex; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/dbsource_item.cpp:51: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/dbsource_item.cpp:32: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/mhfile.hpp:178:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 178 | auto_ptr m_MmappedData; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/defline_item.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/defline_item.cpp:33: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/mapped_feat.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/feature.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:48, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genome_item.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genome_item.cpp:33: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/blast_input_aux.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/feature_item.cpp:90: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -45658,7 +45884,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/feature_item.cpp:44: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -45676,9 +45902,10 @@ | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmerresults.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/blastkmerresults.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmerindex.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/blastkmerindex.cpp:91: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -45686,7 +45913,42 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmerresults.hpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmerindex.hpp:37: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:49: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/comment_item.cpp:58: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/comment_item.cpp:36: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -45730,16 +45992,62 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 65 | auto_ptr m_FileStream; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/ctrl_items.cpp:49: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/ctrl_items.cpp:33: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmerresults.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmer.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/blastkmer.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmerresults.hpp:41: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 156 | auto_ptr m_DecompressIStream; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 157 | auto_ptr m_CompressOStream; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 875 | auto_ptr m_DecompressIStream; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 65 | auto_ptr m_FileStream; @@ -45747,8 +46055,14 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 65 | auto_ptr m_FileStream; +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:49, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/basecount_item.cpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -45765,14 +46079,20 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 322 | auto_ptr m_pOpticalMapPointsDestroyer; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:40, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blastp_args.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/blastp_args.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/rmblastn_args.hpp:21, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/rmblastn_args.cpp:20: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -45802,45 +46122,89 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmerutils.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmerresults.hpp:46: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/mhfile.hpp:175:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 175 | auto_ptr m_MmappedIndex; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/blast_input.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_loc_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_loc.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/blast_input.cpp:35: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/mhfile.hpp:178:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 178 | auto_ptr m_MmappedData; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/blast_input_aux.cpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 479 | auto_ptr m_Selector; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 65 | auto_ptr m_FileStream; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blastx_args.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/blastx_args.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:38: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 156 | auto_ptr m_DecompressIStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 322 | auto_ptr m_pOpticalMapPointsDestroyer; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 157 | auto_ptr m_CompressOStream; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmerutils.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmerresults.hpp:46: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/mhfile.hpp:175:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 175 | auto_ptr m_MmappedIndex; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/mhfile.hpp:178:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 178 | auto_ptr m_MmappedData; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -45866,21 +46230,51 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 875 | auto_ptr m_DecompressIStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 479 | auto_ptr m_Selector; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/feature_item.cpp:91: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/blast_input_aux.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:37: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/kblastapi.cpp:38: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/tblastn_args.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/tblastn_args.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:38: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -45893,17 +46287,15 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 528 | mutable auto_ptr m_AnnotNames; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blastx_args.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/blastx_args.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/locus_item.cpp:55: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -45911,7 +46303,58 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:38: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/locus_item.cpp:33: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmerutils.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmerindex.hpp:44: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/mhfile.hpp:175:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 175 | auto_ptr m_MmappedIndex; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/mhfile.hpp:178:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 178 | auto_ptr m_MmappedData; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/blastkmerresults.cpp: In member function 'void ncbi::blast::CBlastKmerResults::GetTSL(ncbi::blast::TSeqLocVector&, ncbi::CRef) const': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/blastkmerresults.cpp:75:19: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 75 | auto_ptr ssl(new SSeqLoc(*seqloc, *scope)); + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -45947,33 +46390,39 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/mapped_feat.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/feature.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:48, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/keywords_item.cpp:53: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/keywords_item.cpp:33: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmerresults.hpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -45983,17 +46432,10 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/tblastn_args.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/tblastn_args.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/kblastapi.cpp:38: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:38: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -46009,16 +46451,14 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/psiblast_args.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/blast_input_aux.cpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 156 | auto_ptr m_DecompressIStream; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 157 | auto_ptr m_CompressOStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -46032,23 +46472,10 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 875 | auto_ptr m_DecompressIStream; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 65 | auto_ptr m_FileStream; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/blast_input.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/accession_item.cpp:40: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -46056,10 +46483,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_loc_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_loc.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/blast_input.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/accession_item.cpp:33: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -46075,34 +46499,73 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 156 | auto_ptr m_DecompressIStream; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:49: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 157 | auto_ptr m_CompressOStream; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/defline_item.cpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 322 | auto_ptr m_pOpticalMapPointsDestroyer; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/dbsource_item.cpp:56: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 875 | auto_ptr m_DecompressIStream; +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 479 | auto_ptr m_Selector; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmerutils.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmerresults.hpp:46: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/mhfile.hpp:175:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 175 | auto_ptr m_MmappedIndex; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/mhfile.hpp:178:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 178 | auto_ptr m_MmappedData; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/comment_item.cpp:63: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 322 | auto_ptr m_pOpticalMapPointsDestroyer; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -46119,19 +46582,14 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/blastkmerresults.cpp: In member function 'void ncbi::blast::CBlastKmerResults::GetTSL(ncbi::blast::TSeqLocVector&, ncbi::CRef) const': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/blastkmerresults.cpp:75:19: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 75 | auto_ptr ssl(new SSeqLoc(*seqloc, *scope)); - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 479 | auto_ptr m_Selector; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmerutils.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmerresults.hpp:46, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmer.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/kblastapi.cpp:50: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/mhfile.hpp:175:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 175 | auto_ptr m_MmappedIndex; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 322 | auto_ptr m_pOpticalMapPointsDestroyer; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -46148,6 +46606,26 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 479 | auto_ptr m_Selector; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/comment_item.cpp: In function 'void ncbi::objects::s_GetAssemblyInfo(const CBioseqContext&, std::string&, const CUser_object&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/comment_item.cpp:374:16: warning: unused variable 'is_html' [-Wunused-variable] + 374 | const bool is_html = ctx.Config().DoHTML(); + | ^~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmerutils.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmerresults.hpp:46, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmer.hpp:45, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/kblastapi.cpp:50: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/mhfile.hpp:175:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 175 | auto_ptr m_MmappedIndex; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/mhfile.hpp:178:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 178 | auto_ptr m_MmappedData; | ^~~~~~~~ @@ -46161,9 +46639,28 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 65 | auto_ptr m_FileStream; +item.cpp -o dbsource_item.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/defline_item.cpp -o defline_item.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/feature_item.cpp -o feature_item.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genome_item.cpp -o genome_item.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/ctrl_items.cpp -o ctrl_items.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/keywords_item.cpp -o keywords_item.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/locus_item.cpp -o locus_item.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/dbsource_item.cpp:61: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 322 | auto_ptr m_pOpticalMapPointsDestroyer; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -46180,12 +46677,45 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 65 | auto_ptr m_FileStream; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 65 | auto_ptr m_FileStream; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 479 | auto_ptr m_Selector; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 875 | auto_ptr m_DecompressIStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 65 | auto_ptr m_FileStream; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 65 | auto_ptr m_FileStream; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 156 | auto_ptr m_DecompressIStream; | ^~~~~~~~ @@ -46198,30 +46728,25 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/comment_item.cpp:58: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 156 | auto_ptr m_DecompressIStream; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/comment_item.cpp:36: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 157 | auto_ptr m_CompressOStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/ctrl_items.cpp:53: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -46231,28 +46756,26 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 65 | auto_ptr m_FileStream; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:49: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 875 | auto_ptr m_DecompressIStream; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 156 | auto_ptr m_DecompressIStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 157 | auto_ptr m_CompressOStream; | ^~~~~~~~ @@ -46265,9 +46788,20 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/locus_item.cpp:59: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/blast_args.cpp:51: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/blast_input_aux.cpp:39: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ @@ -46286,6 +46820,21 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/blast_args.cpp:51: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: @@ -46295,26 +46844,34 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/comment_item.cpp:63: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 322 | auto_ptr m_pOpticalMapPointsDestroyer; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 479 | auto_ptr m_Selector; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/ctrl_items.cpp:58: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 322 | auto_ptr m_pOpticalMapPointsDestroyer; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/comment_item.cpp: In function 'void ncbi::objects::s_GetAssemblyInfo(const CBioseqContext&, std::string&, const CUser_object&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/comment_item.cpp:374:16: warning: unused variable 'is_html' [-Wunused-variable] - 374 | const bool is_html = ctx.Config().DoHTML(); - | ^~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/blast_fasta_input.cpp:46: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 479 | auto_ptr m_Selector; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -46324,6 +46881,23 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 479 | auto_ptr m_Selector; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/locus_item.cpp:65: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 322 | auto_ptr m_pOpticalMapPointsDestroyer; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/keywords_item.cpp: In member function 'virtual void ncbi::objects::CKeywordsItem::x_GatherInfo(ncbi::objects::CBioseqContext&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/keywords_item.cpp:344:18: warning: catching polymorphic type 'class ncbi::CException' by value [-Wcatch-value=] + 344 | } catch (CException) { + | ^~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/blast_args.cpp:54: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] @@ -46350,21 +46924,9 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/blast_fasta_input.cpp:46: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1554 | static auto_ptr m_GeneInfoReader; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 479 | auto_ptr m_Selector; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -46375,30 +46937,21 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/basecount_item.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/basecount_item.cpp:33: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1554 | static auto_ptr m_GeneInfoReader; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -46433,38 +46986,127 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/mapped_feat.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/feature.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:48, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/date_item.cpp:43: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/accession_item.cpp:46: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 322 | auto_ptr m_pOpticalMapPointsDestroyer; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/date_item.cpp:33: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 479 | auto_ptr m_Selector; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/feature_item.cpp:94: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/accession_item.cpp:40: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/gene_finder.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/feature_item.cpp:108: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 322 | auto_ptr m_pOpticalMapPointsDestroyer; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 479 | auto_ptr m_Selector; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/gene_finder.hpp:113:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 113 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/psiblast_args.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/blast_input_aux.cpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 156 | auto_ptr m_DecompressIStream; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 157 | auto_ptr m_CompressOStream; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/feature_item.cpp: In function 'const std::string& ncbi::objects::s_AaName(int)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/feature_item.cpp:2115:25: warning: comparison of integer expressions of different signedness: 'int' and 'std::size_t' {aka 'long unsigned int'} [-Wsign-compare] + 2115 | if ( idx > 0 && idx < ArraySize(s_TrnaList) ) { + | ~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 875 | auto_ptr m_DecompressIStream; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 65 | auto_ptr m_FileStream; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 156 | auto_ptr m_DecompressIStream; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 157 | auto_ptr m_CompressOStream; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 875 | auto_ptr m_DecompressIStream; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +CE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/tblastx_args.cpp -o tblastx_args.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/psiblast_args.cpp -o psiblast_args.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/rpsblast_args.cpp -o rpsblast_args.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/rpstblastn_args.cpp -o rpstblastn_args.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/igblastn_args.cpp -o igblastn_args.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/igblastp_args.cpp -o igblastp_args.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LA -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/primary_item.cpp -o primary_item.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/reference_item.cpp -o reference_item.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/segment_item.cpp -o segment_item.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/sequence_item.cpp -o sequence_item.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/source_item.cpp -o source_item.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/version_item.cpp -o version_item.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/primary_item.cpp:41: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -46472,7 +47114,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/accession_item.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/primary_item.cpp:33: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -46492,7 +47134,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/mapped_feat.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/feature.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:48, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/keywords_item.cpp:53: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/segment_item.cpp:38: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -46500,7 +47142,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/keywords_item.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/segment_item.cpp:33: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -46517,10 +47159,13 @@ 65 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/mapped_feat.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/feature.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:48, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genome_item.cpp:38: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/rpsblast_args.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/rpsblast_args.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -46528,7 +47173,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genome_item.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:38: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -46554,8 +47199,7 @@ | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/defline_item.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/source_item.cpp:41: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -46563,7 +47207,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/defline_item.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/source_item.cpp:33: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -46579,95 +47223,84 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/locus_item.cpp:55: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/reference_item.cpp:60: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/locus_item.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/reference_item.cpp:35: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 65 | auto_ptr m_FileStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:49, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/basecount_item.cpp:41: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/primary_item.cpp:43: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 322 | auto_ptr m_pOpticalMapPointsDestroyer; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 156 | auto_ptr m_DecompressIStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 479 | auto_ptr m_Selector; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 157 | auto_ptr m_CompressOStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 322 | auto_ptr m_pOpticalMapPointsDestroyer; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 875 | auto_ptr m_DecompressIStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 479 | auto_ptr m_Selector; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 322 | auto_ptr m_pOpticalMapPointsDestroyer; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 65 | auto_ptr m_FileStream; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 156 | auto_ptr m_DecompressIStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 157 | auto_ptr m_CompressOStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 479 | auto_ptr m_Selector; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/ctrl_items.cpp:49: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/reference_item.cpp:61: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/ctrl_items.cpp:33: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -46683,23 +47316,34 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 875 | auto_ptr m_DecompressIStream; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/primary_item.cpp:48: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 322 | auto_ptr m_pOpticalMapPointsDestroyer; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:49: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 479 | auto_ptr m_Selector; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/primary_item.cpp: In member function 'void ncbi::objects::CPrimaryItem::x_GetStrForPrimary(ncbi::objects::CBioseqContext&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/primary_item.cpp:220:63: warning: comparison of integer expressions of different signedness: 'ncbi::TSeqPos' {aka 'unsigned int'} and 'ncbi::TSignedSeqPos' {aka 'int'} [-Wsign-compare] + 220 | if ( ctx.IsRefSeq() && last_stop > -1 && (this_start > (last_stop + 1)) ) { + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/primary_item.cpp:221:28: warning: comparison of integer expressions of different signedness: 'ncbi::TSeqPos' {aka 'unsigned int'} and 'int' [-Wsign-compare] + 221 | if (this_start < (15 + last_stop) ) { + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/dbsource_item.cpp:51: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/rpstblastn_args.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/rpstblastn_args.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -46707,7 +47351,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/dbsource_item.cpp:32: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:38: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -46723,23 +47367,14 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 322 | auto_ptr m_pOpticalMapPointsDestroyer; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 479 | auto_ptr m_Selector; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/mapped_feat.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/feature.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:48, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/contig_item.cpp:45: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/version_item.cpp:40: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -46747,22 +47382,15 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/contig_item.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/version_item.cpp:33: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/locus_item.cpp:59: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -46770,51 +47398,29 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 528 | mutable auto_ptr m_AnnotNames; | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/keywords_item.cpp: In member function 'virtual void ncbi::objects::CKeywordsItem::x_GatherInfo(ncbi::objects::CBioseqContext&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/keywords_item.cpp:344:18: warning: catching polymorphic type 'class ncbi::CException' by value [-Wcatch-value=] - 344 | } catch (CException) { - | ^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:49: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/source_item.cpp:42: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -CE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/tblastx_args.cpp -o tblastx_args.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/psiblast_args.cpp -o psiblast_args.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/rpsblast_args.cpp -o rpsblast_args.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/rpstblastn_args.cpp -o rpstblastn_args.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/igblastn_args.cpp -o igblastn_args.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/igblastp_args.cpp -o igblastp_args.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LAIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/feature_item.cpp:90: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/sequence_item.cpp:38: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -46822,14 +47428,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/feature_item.cpp:44: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/locus_item.cpp:65: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 322 | auto_ptr m_pOpticalMapPointsDestroyer; - | ^~~~~~~~ + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/sequence_item.cpp:33: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -46839,78 +47438,53 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 479 | auto_ptr m_Selector; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 528 | mutable auto_ptr m_AnnotNames; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/reference_item.cpp:70: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 322 | auto_ptr m_pOpticalMapPointsDestroyer; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 479 | auto_ptr m_Selector; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/ctrl_items.cpp:53: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/accession_item.cpp:46: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 322 | auto_ptr m_pOpticalMapPointsDestroyer; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/igblastn_args.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/igblastn_args.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:38: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 479 | auto_ptr m_Selector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/feature_item.cpp:91: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -46926,37 +47500,32 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/dbsource_item.cpp:56: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 65 | auto_ptr m_FileStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:49: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 156 | auto_ptr m_DecompressIStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 157 | auto_ptr m_CompressOStream; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 875 | auto_ptr m_DecompressIStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/ctrl_items.cpp:58: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/source_item.cpp:47: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 322 | auto_ptr m_pOpticalMapPointsDestroyer; | ^~~~~~~~ @@ -46969,15 +47538,27 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/defline_item.cpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 322 | auto_ptr m_pOpticalMapPointsDestroyer; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/source_item.cpp: In member function 'void ncbi::objects::CSourceItem::x_GatherInfoIdx(ncbi::objects::CBioseqContext&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/source_item.cpp:182:23: warning: comparison of integer expressions of different signedness: 'int' and 'long unsigned int' [-Wsign-compare] + 182 | for (int i = 0; i < sizeof (legal_organelles) / sizeof (const char*); i++) { + | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/source_item.cpp: In member function 'void ncbi::objects::CSourceItem::x_SetSource(const ncbi::objects::CBioSource&, const ncbi::CSerialObject&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/source_item.cpp:387:21: warning: comparison of integer expressions of different signedness: 'ncbi::objects::CBioSource_Base::TGenome' {aka 'int'} and 'const unsigned int' [-Wsign-compare] + 387 | if ( genome >= s_organelle_prefix_size ) { + | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:49: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 479 | auto_ptr m_Selector; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -46994,39 +47575,11 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/dbsource_item.cpp:61: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 322 | auto_ptr m_pOpticalMapPointsDestroyer; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/sequence_item.cpp:43: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 322 | auto_ptr m_pOpticalMapPointsDestroyer; | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 479 | auto_ptr m_Selector; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 479 | auto_ptr m_Selector; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -item.cpp -o dbsource_item.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/defline_item.cpp -o defline_item.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/feature_item.cpp -o feature_item.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genome_item.cpp -o genome_item.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/ctrl_items.cpp -o ctrl_items.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/keywords_item.cpp -o keywords_item.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/locus_item.cpp -o locus_item.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthreadeproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/mhfile.cpp -o mhfile.o +eproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/mhfile.cpp -o mhfile.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/pearson.cpp -o pearson.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/kblastapi.cpp -o kblastapi.o /bin/rm -f libproteinkmer.so .libproteinkmer.so.stamp @@ -47035,24 +47588,35 @@ /bin/ln -f libproteinkmer.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libproteinkmer.so /bin/ln -f .proteinkmer.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.proteinkmer.dep make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer' +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer' cd algo/blast/igblast/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=igblast UNIX_PROJ="" sources= configurables=configurables.null cd algo/blast/proteinkmer/unit_test/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=proteinkmer_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/igblast' make[4]: warning: -j12 forced in submake: resetting jobserver mode. cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=aalookup_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer/unit_test' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=aascan_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=blastdiag_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer/unit_test' make[4]: warning: -j12 forced in submake: resetting jobserver mode. cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=blastengine_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=blastextend_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 479 | auto_ptr m_Selector; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +make[4]: warning: -j12 forced in submake: resetting jobserver mode. cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=blastfilter_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: warning: -j12 forced in submake: resetting jobserver mode. @@ -47060,124 +47624,130 @@ make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=blastoptions_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/feature_item.cpp:94: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/igblast' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/igblast' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/igblast' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/igblast' -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 65 | auto_ptr m_FileStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer/unit_test' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer/unit_test' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/igblast' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/igblast TMPL=igblast -w -j12 --jobserver-auth=7,8 all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/igblast' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer/unit_test' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer/unit_test' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer/unit_test' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/igblast TMPL=igblast -w -j12 --jobserver-auth=7,8 all -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/unit_test TMPL=proteinkmer_unit_test -w -j12 --jobserver-auth=7,8 all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=aalookup_unit_test -w -j12 --jobserver-auth=7,8 all -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=blastextend_unit_test -w -j12 --jobserver-auth=7,8 all make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/rpstblastn_args.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/rpstblastn_args.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer/unit_test' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=blastengine_unit_test -w -j12 --jobserver-auth=7,8 all +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer/unit_test' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 322 | auto_ptr m_pOpticalMapPointsDestroyer; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:38: +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=blastdiag_unit_test -w -j12 --jobserver-auth=7,8 all /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=aascan_unit_test -w -j12 --jobserver-auth=7,8 all -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=blasthits_unit_test -w -j12 --jobserver-auth=7,8 all +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=aalookup_unit_test -w -j12 --jobserver-auth=7,8 all +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/unit_test TMPL=proteinkmer_unit_test -w -j12 --jobserver-auth=7,8 all make[5]: warning: -j12 forced in submake: resetting jobserver mode. +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=blastextend_unit_test -w -j12 --jobserver-auth=7,8 all make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=blastfilter_unit_test -w -j12 --jobserver-auth=7,8 all make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=blastdiag_unit_test -w -j12 --jobserver-auth=7,8 all -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=blastengine_unit_test -w -j12 --jobserver-auth=7,8 all +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=blastoptions_unit_test -w -j12 --jobserver-auth=7,8 all make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 156 | auto_ptr m_DecompressIStream; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 479 | auto_ptr m_Selector; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=blastfilter_unit_test -w -j12 --jobserver-auth=7,8 all -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 157 | auto_ptr m_CompressOStream; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 875 | auto_ptr m_DecompressIStream; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/aalookup_unit_test.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastengine_unit_test.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -47286,19 +47856,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=blastoptions_unit_test -w -j12 --jobserver-auth=7,8 all In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/unit_test/proteinkmer_unit_test.cpp:39: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blasthits_unit_test.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -47407,11 +47967,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=blasthits_unit_test -w -j12 --jobserver-auth=7,8 all -make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/aascan_unit_test.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastdiag_unit_test.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -47520,8 +48078,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastextend_unit_test.cpp:34: @@ -47552,18 +48108,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/aascan_unit_test.cpp:34: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ @@ -47576,12 +48126,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ @@ -47594,30 +48144,23 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:85: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 170 | CVersion(const SBuildInfo& build_info = NCBI_Sro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:77: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | BUILDINFO_DEFAULT()) + | ^ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ @@ -47627,18 +48170,7 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastengine_unit_test.cpp:34: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macr ^ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ @@ -47649,17 +48181,29 @@ 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDIo 'NCBI_SBUILDINFO_DEFAULT_IMPL' 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | NFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+- ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) | ^~~~~~~~~~~~~~~ @@ -47669,16 +48213,8 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 177 | 2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) | ^~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' @@ -47687,12 +48223,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:85: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ @@ -47705,8 +48241,11 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:77: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 94 | CNcbiApplication const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:85: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) @@ -47744,24 +48283,41 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ +(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/mapped_feat.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/feature.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:48, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/tsa_item.cpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastdiag_unit_test.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/gene_finder.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/feature_item.cpp:108: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 322 | auto_ptr m_pOpticalMapPointsDestroyer; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -124:55: note: in expansion of macro 'NCBI_BUILD_TIME' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) | ^~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' @@ -47863,9 +48419,28 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/igblastp_args.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/igblastp_args.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:38: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/aalookup_unit_test.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -47884,6 +48459,20 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/tsa_item.cpp:33: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastoptions_unit_test.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -47974,37 +48563,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 479 | auto_ptr m_Selector; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/gene_finder.hpp:113:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 113 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/igblastn_args.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/igblastn_args.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:38: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ @@ -48017,12 +48575,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blasthits_unit_test.cpp:34: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ @@ -48128,12 +48680,23 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastoptions_unit_test.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/unit_test/proteinkmer_unit_test.cpp:39: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ @@ -48239,43 +48802,14 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/feature_item.cpp: In function 'const std::string& ncbi::objects::s_AaName(int)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/feature_item.cpp:2115:25: warning: comparison of integer expressions of different signedness: 'int' and 'std::size_t' {aka 'long unsigned int'} [-Wsign-compare] - 2115 | if ( idx > 0 && idx < ArraySize(s_TrnaList) ) { - | ~~~~^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 65 | auto_ptr m_FileStream; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 156 | auto_ptr m_DecompressIStream; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 157 | auto_ptr m_CompressOStream; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 875 | auto_ptr m_DecompressIStream; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:40, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/rpsblast_args.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/rpsblast_args.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/magicblast_args.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/magicblast_args.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -48299,64 +48833,14 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 65 | auto_ptr m_FileStream; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ - -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/primary_item.cpp -o primary_item.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/reference_item.cpp -o reference_item.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/segment_item.cpp -o segment_item.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/sequence_item.cpp -o sequence_item.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/source_item.cpp -o source_item.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/version_item.cpp -o version_item.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 156 | auto_ptr m_DecompressIStream; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 157 | auto_ptr m_CompressOStream; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 875 | auto_ptr m_DecompressIStream; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 65 | auto_ptr m_FileStream; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 156 | auto_ptr m_DecompressIStream; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 157 | auto_ptr m_CompressOStream; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:40, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/igblastp_args.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/igblastp_args.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/deltablast_args.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/deltablast_args.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -48380,20 +48864,18 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 875 | auto_ptr m_DecompressIStream; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 65 | auto_ptr m_FileStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/magicblast_args.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/magicblast_args.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/mapped_feat.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/feature.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:48, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/wgs_item.cpp:40: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -48401,7 +48883,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:38: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/wgs_item.cpp:33: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -48417,63 +48899,36 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/primary_item.cpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:49: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/primary_item.cpp:33: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/deltablast_args.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/deltablast_args.cpp:34: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 156 | auto_ptr m_DecompressIStream; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:38: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 157 | auto_ptr m_CompressOStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 875 | auto_ptr m_DecompressIStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/igblastp_args.cpp: In constructor 'ncbi::blast::CIgBlastpAppArgs::CIgBlastpAppArgs()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/igblastp_args.cpp:67:16: warning: unused variable 'kFilterByDefault' [-Wunused-variable] + 67 | const bool kFilterByDefault = false; + | ^~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 65 | auto_ptr m_FileStream; @@ -48493,23 +48948,31 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 65 | auto_ptr m_FileStream; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 875 | auto_ptr m_DecompressIStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 65 | auto_ptr m_FileStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 322 | auto_ptr m_pOpticalMapPointsDestroyer; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 479 | auto_ptr m_Selector; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/igblastp_args.cpp: In constructor 'ncbi::blast::CIgBlastpAppArgs::CIgBlastpAppArgs()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/igblastp_args.cpp:67:16: warning: unused variable 'kFilterByDefault' [-Wunused-variable] - 67 | const bool kFilterByDefault = false; - | ^~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 156 | auto_ptr m_DecompressIStream; | ^~~~~~~~ @@ -48528,11 +48991,24 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/magicblast_args.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/mapped_feat.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/feature.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:48, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/version_item.cpp:40: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/kblastp_args.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/kblastp_args.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -48540,7 +49016,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/version_item.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:38: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -48556,11 +49032,47 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/mapped_feat.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/feature.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:48, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/segment_item.cpp:38: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:49: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ ++ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/wgs_item.cpp -o wgs_item.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/tsa_item.cpp -o tsa_item.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/flat_seqloc.cpp -o flat_seqloc.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/qualifiers.cpp -o qualifiers.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/context.cpp -o context.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gather_items.cpp -o gather_items.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werr/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 322 | auto_ptr m_pOpticalMapPointsDestroyer; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 479 | auto_ptr m_Selector; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/blast_asn1_input.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -48568,7 +49080,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/segment_item.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -48584,9 +49096,9 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/source_item.cpp:41: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/flat_seqloc.cpp:42: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -48594,7 +49106,10 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/source_item.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/general/Int_fuzz_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/general/Int_fuzz.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/flat_seqloc.cpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -48610,33 +49125,19 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/magicblast_args.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 65 | auto_ptr m_FileStream; | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastengine_unit_test.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/magicblast_args.cpp: In member function 'virtual void ncbi::blast::CMapperMTArgs::ExtractAlgorithmOptions(const ncbi::CArgs&, ncbi::blast::CBlastOptions&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/magicblast_args.cpp:205:59: warning: 'unsigned int ncbi::GetCpuCount()' is deprecated [-Wdeprecated-declarations] + 205 | const int kMaxValue = static_cast(GetCpuCount()); + | ~~~~~~~~~~~^~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbifile.hpp:53, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_system.hpp:479:14: note: declared here + 479 | unsigned int GetCpuCount(void) + | ^~~~~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -48658,26 +49159,35 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp:37: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/source_item.cpp:42: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/flat_seqloc.cpp:44: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastextend_unit_test.cpp:37: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -48693,58 +49203,82 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/source_item.cpp:47: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 322 | auto_ptr m_pOpticalMapPointsDestroyer; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 479 | auto_ptr m_Selector; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/source_item.cpp: In member function 'void ncbi::objects::CSourceItem::x_GatherInfoIdx(ncbi::objects::CBioseqContext&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/source_item.cpp:182:23: warning: comparison of integer expressions of different signedness: 'int' and 'long unsigned int' [-Wsign-compare] - 182 | for (int i = 0; i < sizeof (legal_organelles) / sizeof (const char*); i++) { - | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/source_item.cpp: In member function 'void ncbi::objects::CSourceItem::x_SetSource(const ncbi::objects::CBioSource&, const ncbi::CSerialObject&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/source_item.cpp:387:21: warning: comparison of integer expressions of different signedness: 'ncbi::objects::CBioSource_Base::TGenome' {aka 'int'} and 'const unsigned int' [-Wsign-compare] - 387 | if ( genome >= s_organelle_prefix_size ) { - | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:49: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/flat_seqloc.cpp:48: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 322 | auto_ptr m_pOpticalMapPointsDestroyer; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/primary_item.cpp:43: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/igblast/igblast.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/igblast/igblast.cpp:34: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 479 | auto_ptr m_Selector; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastextend_unit_test.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/blast_asn1_input.cpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 65 | auto_ptr m_FileStream; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastengine_unit_test.cpp:37: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ @@ -48757,20 +49291,31 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:49: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/aascan_unit_test.cpp:37: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastengine_unit_test.cpp:38: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/qualifiers.cpp:52: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/qualifiers.cpp:34: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -48786,22 +49331,27 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/kblastp_args.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/kblastp_args.cpp:34: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/aalookup_unit_test.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:38: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/simple/simple_om.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -48832,119 +49382,92 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 322 | auto_ptr m_pOpticalMapPointsDestroyer; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/aascan_unit_test.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/igblast/igblast.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 743 | auto_ptr m_ObjectStream; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 479 | auto_ptr m_Selector; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastextend_unit_test.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/aalookup_unit_test.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/simple/simple_om.hpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 65 | auto_ptr m_FileStream; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/aascan_unit_test.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 156 | auto_ptr m_DecompressIStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 157 | auto_ptr m_CompressOStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 875 | auto_ptr m_DecompressIStream; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastengine_unit_test.cpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:49, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/qualifiers.cpp:56: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/flat_seqloc.cpp:42: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastengine_unit_test.cpp:38: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/general/Int_fuzz_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/general/Int_fuzz.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/flat_seqloc.cpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -48960,7 +49483,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/primary_item.cpp:48: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 322 | auto_ptr m_pOpticalMapPointsDestroyer; | ^~~~~~~~ @@ -48973,10 +49495,45 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/blast_asn1_input.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/qualifiers.cpp: In member function 'virtual void ncbi::objects::CFlatSeqIdQVal::Format(ncbi::objects::TFlatQuals&, const ncbi::CTempString&, ncbi::objects::CBioseqContext&, ncbi::objects::IFlatQVal::TFlags) const': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/qualifiers.cpp:1108:10: warning: unused variable 'bHtml' [-Wunused-variable] + 1108 | bool bHtml = ctx.Config().DoHTML(); + | ^~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp:42: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/igblast/igblast.cpp:42: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/igblast/igblast.cpp: In member function 'void ncbi::blast::CIgBlast::x_FindDJAln(ncbi::CRef&, ncbi::CRef&, std::string, bool, ncbi::objects::ENa_strand, int, int, bool)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/igblast/igblast.cpp:997:43: warning: comparison of integer expressions of different signedness: 'ncbi::TSeqPos' {aka 'unsigned int'} and 'int' [-Wsign-compare] + 997 | if ((*it)->GetSeqStart(1) > max_allowed_j_deletion) keep = false; + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=blastdiag_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastdiag_unit_test.cpp -o blastdiag_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie blastdiag_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -llmdb -lpthread -lm -lpthread -o blastdiag_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blastdiag_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f blastdiag_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blastdiag_unit_test +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api/blast_setup.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blasthits_unit_test.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -48984,26 +49541,15 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/primary_item.cpp: In member function 'void ncbi::objects::CPrimaryItem::x_GetStrForPrimary(ncbi::objects::CBioseqContext&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/primary_item.cpp:220:63: warning: comparison of integer expressions of different signedness: 'ncbi::TSeqPos' {aka 'unsigned int'} and 'ncbi::TSignedSeqPos' {aka 'int'} [-Wsign-compare] - 220 | if ( ctx.IsRefSeq() && last_stop > -1 && (this_start > (last_stop + 1)) ) { - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/primary_item.cpp:221:28: warning: comparison of integer expressions of different signedness: 'ncbi::TSeqPos' {aka 'unsigned int'} and 'int' [-Wsign-compare] - 221 | if (this_start < (15 + last_stop) ) { - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/magicblast_args.cpp: In member function 'virtual void ncbi::blast::CMapperMTArgs::ExtractAlgorithmOptions(const ncbi::CArgs&, ncbi::blast::CBlastOptions&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/magicblast_args.cpp:205:59: warning: 'unsigned int ncbi::GetCpuCount()' is deprecated [-Wdeprecated-declarations] - 205 | const int kMaxValue = static_cast(GetCpuCount()); - | ~~~~~~~~~~~^~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbifile.hpp:53, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_system.hpp:479:14: note: declared here - 479 | unsigned int GetCpuCount(void) - | ^~~~~~~~~~~ +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=blastsetup_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ @@ -49016,10 +49562,128 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=blastsetup_unit_test -w -j12 --jobserver-auth=7,8 all +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastsetup_unit_test.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:85: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:77: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/simple/simple_om.hpp:41: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/aalookup_unit_test.cpp:38: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -49038,64 +49702,63 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/flat_seqloc.cpp:44: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastextend_unit_test.cpp: In member function 'void BlastExtend::testGapAlignment::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastextend_unit_test.cpp:259:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 259 | auto_ptr qsl( | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastengine_unit_test.cpp: In member function 'void blastengine::testBlastpPrelimSearch::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastengine_unit_test.cpp:452:29: warning: 'void ncbi::blast::CBlastOptions::SetFilterString(const char*, bool)' is deprecated [-Wdeprecated-declarations] - 452 | options->SetFilterString("L"); /* NCBI_FAKE_WARNING */ - | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_nucl_options.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastengine_unit_test.cpp:53: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:180:26: note: declared here - 180 | NCBI_DEPRECATED void SetFilterString(const char* f, bool clear = true); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastextend_unit_test.cpp:262:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 262 | auto_ptr ssl( + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blasthits_unit_test.cpp: In member function 'void blasthits::BlastTargetSequence::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blasthits_unit_test.cpp:116:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 116 | auto_ptr subj(CTestObjMgr::Instance().CreateSSeqLoc(sid)); | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/flat_seqloc.cpp:48: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 322 | auto_ptr m_pOpticalMapPointsDestroyer; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastextend_unit_test.cpp: In member function 'void BlastExtend::testGreedyAlignment::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastextend_unit_test.cpp:345:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 345 | auto_ptr qsl( | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 479 | auto_ptr m_Selector; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastextend_unit_test.cpp:348:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 348 | auto_ptr ssl( | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastextend_unit_test.cpp: In member function 'void BlastExtend::testGreedyAlignmentWithBadStart::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastextend_unit_test.cpp:457:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 457 | auto_ptr qsl( + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/mapped_feat.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/feature.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:48, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/tsa_item.cpp:40: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/flat_file_generator.cpp:41: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastextend_unit_test.cpp:461:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 461 | auto_ptr ssl( + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/tsa_item.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/flat_file_generator.cpp:33: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -49111,10 +49774,11 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/sequence_item.cpp:38: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/bl2seq.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastoptions_unit_test.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -49122,7 +49786,8 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/sequence_item.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -49138,14 +49803,33 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmerutils.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmerresults.hpp:46, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmer.hpp:45, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/unit_test/proteinkmer_unit_test.cpp:56: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/mhfile.hpp:175:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 175 | auto_ptr m_MmappedIndex; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/mhfile.hpp:178:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 178 | auto_ptr m_MmappedData; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/simple/simple_om.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp:38: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/context.cpp:51: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/context.cpp:35: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -49161,13 +49845,24 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastengine_unit_test.cpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/igblast/igblast.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/igblast/igblast.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/sequence_item.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/embl_gather.cpp:49: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -49175,7 +49870,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/embl_gather.cpp:34: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -49191,12 +49886,18 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastextend_unit_test.cpp:38: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genbank_gather.cpp:40: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genbank_gather.cpp:34: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -49212,180 +49913,176 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/aascan_unit_test.cpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/reference_item.cpp:60: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/reference_item.cpp:35: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | templIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmerutils.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmerresults.hpp:46, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmer.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/unit_test/proteinkmer_unit_test.cpp:56: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/mhfile.hpp:175:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 175 | auto_ptr m_MmappedIndex; - | ^~~~~~~~ + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api/dust_filter.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp:58: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:159:14: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 159 | std::auto_ptr< TMaskList > operator()( const sequence_type & seq ); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:168:14: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 168 | std::auto_ptr< TMaskList > operator()( const sequence_type & seq, + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/alate class auto_ptr; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp: In static member function 'static void CBlastFilterTest::x_TestLowerCaseMaskWith(ncbi::objects::ENa_strand, bool)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp:189:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 189 | auto_ptr qsl( + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; | ^~~~~~~~ -go/blast/proteinkmer/mhfile.hpp:178:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 178 | auto_ptr m_MmappedData; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp: In function 'void blastfilter::x_TestGetFilteredQueryRegions(ncbi::objects::ENa_strand)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp:333:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 333 | auto_ptr qsl( | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp: In member function 'void blastfilter::SegFilter::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp:473:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 473 | auto_ptr qsl(CTestObjMgr::Instance().CreateSSeqLoc(id)); | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp: In member function 'void blastfilter::RepeatsFilter::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp:513:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 513 | auto_ptr qsl( + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp: In member function 'void blastfilter::WindowMasker::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp:575:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 575 | auto_ptr | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/aalookup_unit_test.cpp:39: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 364 | auto_ptr &feat_ci, | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp: In member function 'void blastfilter::RepeatsFilter_OnSeqInterval::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp:625:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 625 | auto_ptr qsl( + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 869 | auto_ptr m_Gen; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/sequence_item.cpp:43: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 322 | auto_ptr m_pOpticalMapPointsDestroyer; - | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 479 | auto_ptr m_Selector; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp: In member function 'void blastfilter::RepeatsAndDustFilter::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp:707:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 707 | auto_ptr qsl1(CTestObjMgr::Instance().CreateSSeqLoc(id1)); | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/mapped_feat.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/feature.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:48, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/wgs_item.cpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp:712:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 712 | auto_ptr qsl2(CTestObjMgr::Instance().CreateSSeqLoc(id2)); | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/wgs_item.cpp:33: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp: In member function 'void blastfilter::WindowMaskerAndDustFilter::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp:734:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 734 | auto_ptr qsl1(CTestObjMgr::Instance().CreateSSeqLoc(id1)); | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp:739:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 739 | auto_ptr qsl2(CTestObjMgr::Instance().CreateSSeqLoc(id2)); + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/wgs_item.cpp -o wgs_item.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/tsa_item.cpp -o tsa_item.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/flat_seqloc.cpp -o flat_seqloc.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/qualifiers.cpp -o qualifiers.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/context.cpp -o context.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gather_items.cpp -o gather_items.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -WerrIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/aascan_unit_test.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp: In member function 'void blastfilter::WindowMasker_OnSeqInterval::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp:772:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 772 | auto_ptr | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp: In member function 'void blastfilter::RepeatsFilter_NoHitsFound::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp:807:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 807 | auto_ptr qsl( | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp: In member function 'void blastfilter::WindowMasker_NoHitsFound::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp:822:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 822 | auto_ptr qsl + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/bl2seq.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastoptions_unit_test.cpp:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp: In member function 'void blastfilter::RepeatsFilterWithMissingParameter::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp:838:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 838 | auto_ptr qsl(CTestObjMgr::Instance().CreateSSeqLoc(id)); | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/blast_asn1_input.cpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 65 | auto_ptr m_FileStream; +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp: In member function 'void blastfilter::WindowMaskerWithMissingParameter::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp:851:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 851 | auto_ptr qsl(CTestObjMgr::Instance().CreateSSeqLoc(id)); | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/item_formatter.cpp:48: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/item_formatter.cpp:34: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/aalookup_unit_test.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -49395,22 +50092,37 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/flat_file_generator.cpp:44: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/context.cpp:56: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp: In member function 'void blastfilter::CombineRepeatAndLowerCaseMask::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp:1135:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1135 | auto_ptr qsl( + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/qualifiers.cpp:52: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/mapped_feat.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/feature.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:48, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/item_formatter.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/embl_formatter.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/embl_formatter.cpp:43: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -49418,7 +50130,17 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/qualifiers.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/embl_formatter.cpp:34: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp: In member function 'void blastfilter::CombineRepeatAndDustFilter::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp:1178:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1178 | auto_ptr qsl( + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -49434,84 +50156,100 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:49: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp: In member function 'void blastfilter::FilterLocNuclBoth::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp:1212:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1212 | auto_ptr qsl( | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastextend_unit_test.cpp: In member function 'void BlastExtend::testGapAlignment::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastextend_unit_test.cpp:259:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 259 | auto_ptr qsl( +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp: In member function 'void blastfilter::FilterLocNuclPlus::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp:1242:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1242 | auto_ptr qsl( | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastextend_unit_test.cpp:262:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 262 | auto_ptr ssl( +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp: In member function 'void blastfilter::FilterLocNuclMinus::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp:1272:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1272 | auto_ptr qsl( | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/reference_item.cpp:61: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:49, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/gather_items.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/embl_gather.cpp:52: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp: In member function 'void blastfilter::FilterLocProtein::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp:1305:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1305 | auto_ptr qsl(CTestObjMgr::Instance().CreateSSeqLoc(id)); | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastoptions_unit_test.cpp: In member function 'void blastoptions::RemoteOptionsTest::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastoptions_unit_test.cpp:73:47: warning: 'void ncbi::blast::CBlastOptions::SetFilterString(const char*, bool)' is deprecated [-Wdeprecated-declarations] + 73 | BOOST_CHECK_NO_THROW(opts.SetFilterString("m L", false)); /* NCBI_FAKE_WARNING */ + | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:180:9: note: in definition of macro 'BOOST_CHECK_NO_THROW_IMPL_EX' + 180 | S; \ + | ^ +/usr/include/boost/test/tools/old/interface.hpp:147:45: note: in expansion of macro 'BOOST_CHECK_NO_THROW_IMPL' + 147 | #define BOOST_CHECK_NO_THROW( S ) BOOST_CHECK_NO_THROW_IMPL( S, CHECK ) + | ^~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/bl2seq.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:180:26: note: declared here + 180 | NCBI_DEPRECATED void SetFilterString(const char* f, bool clear = true); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp: In member function 'void blastfilter::MaskProteinSequence::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp:1349:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1349 | auto_ptr qsl(CTestObjMgr::Instance().CreateSSeqLoc(id)); + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastextend_unit_test.cpp: In member function 'void BlastExtend::testGreedyAlignment::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastextend_unit_test.cpp:345:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 345 | auto_ptr qsl( +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp: In member function 'void blastfilter::MaskNucleotideBothStrands::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp:1399:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1399 | auto_ptr qsl(CTestObjMgr::Instance().CreateSSeqLoc(id, | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastextend_unit_test.cpp:348:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 348 | auto_ptr ssl( - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastextend_unit_test.cpp: In member function 'void BlastExtend::testGreedyAlignmentWithBadStart::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastextend_unit_test.cpp:457:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 457 | auto_ptr qsl( +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastextend_unit_test.cpp:461:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 461 | auto_ptr ssl( +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp: In member function 'void blastfilter::FilterMultipleQueriesLocNuclPlus::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp:1484:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1484 | auto_ptr qsl1( | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp:42: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp:1487:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1487 | auto_ptr qsl2( + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp:1490:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1490 | auto_ptr qsl3( | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -49522,70 +50260,47 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:49: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 479 | auto_ptr m_Selector; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastoptions_unit_test.cpp: In member function 'void blastoptions::testCalcLinkHSPCutoffs::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastoptions_unit_test.cpp:334:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 334 | auto_ptr qsl( | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastoptions_unit_test.cpp: In member function 'void blastoptions::RemoteOptionsTest::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastoptions_unit_test.cpp:73:47: warning: 'void ncbi::blast::CBlastOptions::SetFilterString(const char*, bool)' is deprecated [-Wdeprecated-declarations] - 73 | BOOST_CHECK_NO_THROW(opts.SetFilterString("m L", false)); /* NCBI_FAKE_WARNING */ - | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:180:9: note: in definition of macro 'BOOST_CHECK_NO_THROW_IMPL_EX' - 180 | S; \ - | ^ -/usr/include/boost/test/tools/old/interface.hpp:147:45: note: in expansion of macro 'BOOST_CHECK_NO_THROW_IMPL' - 147 | #define BOOST_CHECK_NO_THROW( S ) BOOST_CHECK_NO_THROW_IMPL( S, CHECK ) - | ^~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/bl2seq.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:180:26: note: declared here - 180 | NCBI_DEPRECATED void SetFilterString(const char* f, bool clear = true); - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/igblast/igblast.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 743 | auto_ptr m_ObjectStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastoptions_unit_test.cpp:337:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 337 | auto_ptr ssl( | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/reference_item.cpp:70: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/flat_file_generator.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/flat_file_generator.cpp:50: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 322 | auto_ptr m_pOpticalMapPointsDestroyer; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastoptions_unit_test.cpp: In member function 'void blastoptions::testCalcLinkHSPCutoffs::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastoptions_unit_test.cpp:334:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 334 | auto_ptr qsl( +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 479 | auto_ptr m_Selector; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastoptions_unit_test.cpp:337:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 337 | auto_ptr ssl( +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -49601,14 +50316,8 @@ 506 | auto_ptr ssl( | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 479 | auto_ptr m_Selector; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ - class auto_ptr; - | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastoptions_unit_test.cpp: In member function 'void blastoptions::testCalcLinkHSPResetGapProb::test_method()': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastoptions_unit_test.cpp:591:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 591 | auto_ptr qsl( @@ -49759,11 +50468,27 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:178:27: note: declared here 178 | NCBI_DEPRECATED char* GetFilterString() const; | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastengine_unit_test.cpp: In member function 'void blastengine::testBlastpPrelimSearch::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastengine_unit_test.cpp:452:29: warning: 'void ncbi::blast::CBlastOptions::SetFilterString(const char*, bool)' is deprecated [-Wdeprecated-declarations] + 452 | options->SetFilterString("L"); /* NCBI_FAKE_WARNING */ + | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_nucl_options.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastengine_unit_test.cpp:53: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:180:26: note: declared here + 180 | NCBI_DEPRECATED void SetFilterString(const char* f, bool clear = true); + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:49: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api/blast_setup.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blasthits_unit_test.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gather_items.cpp:63: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -49771,8 +50496,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gather_items.cpp:35: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -49788,35 +50512,73 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +or=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/embl_gather.cpp -o embl_gather.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genbank_gather.cpp -o genbank_gather.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/flat_file_generator.cpp -o flat_file_generator.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/item_formatter.cpp -o item_formatter.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/embl_formatter.cpp -o embl_formatter.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genbank_formatter.cpp -o genbank_formatter.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDE/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 322 | auto_ptr m_pOpticalMapPointsDestroyer; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/igblast/igblast.cpp:42: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genbank_formatter.cpp:43: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genbank_formatter.cpp:35: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:49, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/qualifiers.cpp:56: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 479 | auto_ptr m_Selector; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/aalookup_unit_test.cpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/aascan_unit_test.cpp: In constructor 'AascanTestFixture::AascanTestFixture()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/aascan_unit_test.cpp:105:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 105 | auto_ptr ssl + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/aascan_unit_test.cpp:140:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 140 | auto_ptr subject_ssl + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 364 | auto_ptr &feat_ci, | ^~~~~~~~ @@ -49829,81 +50591,207 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/igblast/igblast.cpp: In member function 'void ncbi::blast::CIgBlast::x_FindDJAln(ncbi::CRef&, ncbi::CRef&, std::string, bool, ncbi::objects::ENa_strand, int, int, bool)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/igblast/igblast.cpp:997:43: warning: comparison of integer expressions of different signedness: 'ncbi::TSeqPos' {aka 'unsigned int'} and 'int' [-Wsign-compare] - 997 | if ((*it)->GetSeqStart(1) > max_allowed_j_deletion) keep = false; - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blasthits_unit_test.cpp: In member function 'void blasthits::BlastTargetSequence::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blasthits_unit_test.cpp:116:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 116 | auto_ptr subj(CTestObjMgr::Instance().CreateSSeqLoc(sid)); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/item_formatter.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/item_formatter.cpp:51: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 322 | auto_ptr m_pOpticalMapPointsDestroyer; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 479 | auto_ptr m_Selector; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/context.cpp:64: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 322 | auto_ptr m_pOpticalMapPointsDestroyer; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 479 | auto_ptr m_Selector; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/aalookup_unit_test.cpp: In member function 'void AalookupTestFixture::GetSeqBlk(std::string)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/aalookup_unit_test.cpp:99:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 99 | auto_ptr ssl(CTestObjMgr::Instance().CreateSSeqLoc(id, eNa_strand_unknown)); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/item_formatter.cpp:59: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/gbseq_formatter.hpp:105:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 105 | auto_ptr m_Out; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gather_items.cpp:73: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/aascan_unit_test.cpp:40: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 364 | auto_ptr &feat_ci, | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 322 | auto_ptr m_pOpticalMapPointsDestroyer; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 869 | auto_ptr m_Gen; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/item_formatter.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/genbank_formatter.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genbank_formatter.cpp:47: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 322 | auto_ptr m_pOpticalMapPointsDestroyer; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 479 | auto_ptr m_Selector; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/qualifiers.cpp: In member function 'virtual void ncbi::objects::CFlatSeqIdQVal::Format(ncbi::objects::TFlatQuals&, const ncbi::CTempString&, ncbi::objects::CBioseqContext&, ncbi::objects::IFlatQVal::TFlags) const': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/qualifiers.cpp:1108:10: warning: unused variable 'bHtml' [-Wunused-variable] - 1108 | bool bHtml = ctx.Config().DoHTML(); - | ^~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=blastdiag_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastdiag_unit_test.cpp -o blastdiag_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie blastdiag_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -llmdb -lpthread -lm -lpthread -o blastdiag_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blastdiag_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f blastdiag_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blastdiag_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=blastsetup_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastsetup_unit_test.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbitime.hpp:65, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_system.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbifile.hpp:53, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/util/util_misc.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastsetup_unit_test.cpp:34: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/gather_items.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genbank_gather.cpp:66: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 322 | auto_ptr m_pOpticalMapPointsDestroyer; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 479 | auto_ptr m_Selector; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genbank_formatter.cpp: In member function 'virtual void ncbi::objects::CGenbankFormatter::FormatSequence(const ncbi::objects::CSequenceItem&, ncbi::objects::IFlatTextOStream&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genbank_formatter.cpp:2048:18: warning: catching polymorphic type 'class ncbi::objects::CSeqVectorException' by value [-Wcatch-value=] + 2048 | } catch (CSeqVectorException) { + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genbank_formatter.cpp:2089:26: warning: catching polymorphic type 'class ncbi::objects::CSeqVectorException' by value [-Wcatch-value=] + 2089 | } catch (CSeqVectorException) { + | ^~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/gather_items.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gather_items.cpp:100: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 322 | auto_ptr m_pOpticalMapPointsDestroyer; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 479 | auto_ptr m_Selector; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gather_items.cpp:101: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/gather_iter.hpp:78:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 78 | auto_ptr m_BioseqIter; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +RGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/deltablast_args.cpp -o deltablast_args.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/magicblast_args.cpp -o magicblast_args.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/kblastp_args.cpp -o kblastp_args.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/blast_asn1_input.cpp -o blast_asn1_input.o +/bin/rm -f libblastinput.so .libblastinput.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libblastinput.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC blast_input.o blast_fasta_input.o blast_scope_src.o blast_args.o cmdline_flags.o blast_input_aux.o blastp_args.o blastn_args.o rmblastn_args.o blastx_args.o tblastn_args.o tblastx_args.o psiblast_args.o rpsblast_args.o rpstblastn_args.o igblastn_args.o igblastp_args.o deltablast_args.o magicblast_args.o kblastp_args.o blast_asn1_input.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxblast -lalign_format -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lseqdb -lxobjread -lxobjread -lvariation -lsubmit -lxlogging -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -lxutil -lncbi_xloader_genbank -lncbi_xreader_id2 -lncbi_xreader -lscoremat -lseqset -lseq -lxser -lxutil -lxncbi -llmdb -lpthread -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libblastinput.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libblastinput.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libblastinput.so +/bin/ln -f .blastinput.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.blastinput.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/blastinput' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/blastinput' +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=gapinfo_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gather_items.cpp: In member function 'void ncbi::objects::CFlatGatherer::x_SubtractFromFocus(TSourceFeatSet&) const': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gather_items.cpp:2144:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 2144 | auto_ptr copyOfOriginalSeqLocOfFocus( new CSeq_loc() ); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=blastsetup_unit_test -w -j12 --jobserver-auth=7,8 all -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api/dust_filter.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp:58: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:159:14: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 159 | std::auto_ptr< TMaskList > operator()( const sequence_type & seq ); - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:168:14: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 168 | std::auto_ptr< TMaskList > operator()( const sequence_type & seq, - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=gapinfo_unit_test -w -j12 --jobserver-auth=7,8 all make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastsetup_unit_test.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/gapinfo_unit_test.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -50000,397 +50888,25 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp: In static member function 'static void CBlastFilterTest::x_TestLowerCaseMaskWith(ncbi::objects::ENa_strand, bool)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp:189:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 189 | auto_ptr qsl( - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp: In function 'void blastfilter::x_TestGetFilteredQueryRegions(ncbi::objects::ENa_strand)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp:333:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 333 | auto_ptr qsl( - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp: In member function 'void blastfilter::SegFilter::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp:473:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 473 | auto_ptr qsl(CTestObjMgr::Instance().CreateSSeqLoc(id)); - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp: In member function 'void blastfilter::RepeatsFilter::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp:513:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 513 | auto_ptr qsl( - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp: In member function 'void blastfilter::WindowMasker::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp:575:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 575 | auto_ptr - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp: In member function 'void blastfilter::RepeatsFilter_OnSeqInterval::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp:625:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 625 | auto_ptr qsl( - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp: In member function 'void blastfilter::RepeatsAndDustFilter::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp:707:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 707 | auto_ptr qsl1(CTestObjMgr::Instance().CreateSSeqLoc(id1)); - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp:712:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 712 | auto_ptr qsl2(CTestObjMgr::Instance().CreateSSeqLoc(id2)); - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp: In member function 'void blastfilter::WindowMaskerAndDustFilter::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp:734:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 734 | auto_ptr qsl1(CTestObjMgr::Instance().CreateSSeqLoc(id1)); - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp:739:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 739 | auto_ptr qsl2(CTestObjMgr::Instance().CreateSSeqLoc(id2)); - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp: In member function 'void blastfilter::WindowMasker_OnSeqInterval::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp:772:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 772 | auto_ptr - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp: In member function 'void blastfilter::RepeatsFilter_NoHitsFound::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp:807:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 807 | auto_ptr qsl( - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/aalookup_unit_test.cpp: In member function 'void AalookupTestFixture::GetSeqBlk(std::string)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/aalookup_unit_test.cpp:99:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 99 | auto_ptr ssl(CTestObjMgr::Instance().CreateSSeqLoc(id, eNa_strand_unknown)); - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp: In member function 'void blastfilter::WindowMasker_NoHitsFound::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp:822:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 822 | auto_ptr qsl - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp: In member function 'void blastfilter::RepeatsFilterWithMissingParameter::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp:838:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 838 | auto_ptr qsl(CTestObjMgr::Instance().CreateSSeqLoc(id)); - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp: In member function 'void blastfilter::WindowMaskerWithMissingParameter::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp:851:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 851 | auto_ptr qsl(CTestObjMgr::Instance().CreateSSeqLoc(id)); - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp: In member function 'void blastfilter::CombineRepeatAndLowerCaseMask::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp:1135:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1135 | auto_ptr qsl( - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp: In member function 'void blastfilter::CombineRepeatAndDustFilter::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp:1178:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1178 | auto_ptr qsl( - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp: In member function 'void blastfilter::FilterLocNuclBoth::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp:1212:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1212 | auto_ptr qsl( - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp: In member function 'void blastfilter::FilterLocNuclPlus::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp:1242:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1242 | auto_ptr qsl( - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp: In member function 'void blastfilter::FilterLocNuclMinus::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp:1272:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1272 | auto_ptr qsl( - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp: In member function 'void blastfilter::FilterLocProtein::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp:1305:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1305 | auto_ptr qsl(CTestObjMgr::Instance().CreateSSeqLoc(id)); - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp: In member function 'void blastfilter::MaskProteinSequence::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp:1349:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1349 | auto_ptr qsl(CTestObjMgr::Instance().CreateSSeqLoc(id)); - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp: In member function 'void blastfilter::MaskNucleotideBothStrands::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp:1399:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1399 | auto_ptr qsl(CTestObjMgr::Instance().CreateSSeqLoc(id, - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp: In member function 'void blastfilter::FilterMultipleQueriesLocNuclPlus::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp:1484:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1484 | auto_ptr qsl1( - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp:1487:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1487 | auto_ptr qsl2( - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp:1490:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1490 | auto_ptr qsl3( - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/sequence_item.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/embl_gather.cpp:49: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/embl_gather.cpp:34: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/aascan_unit_test.cpp: In constructor 'AascanTestFixture::AascanTestFixture()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/aascan_unit_test.cpp:105:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 105 | auto_ptr ssl - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/aascan_unit_test.cpp:140:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 140 | auto_ptr subject_ssl - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:49, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/gather_items.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/embl_gather.cpp:52: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gather_items.cpp:63: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gather_items.cpp:35: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 322 | auto_ptr m_pOpticalMapPointsDestroyer; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 479 | auto_ptr m_Selector; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -or=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/embl_gather.cpp -o embl_gather.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genbank_gather.cpp -o genbank_gather.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/flat_file_generator.cpp -o flat_file_generator.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/item_formatter.cpp -o item_formatter.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/embl_formatter.cpp -o embl_formatter.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genbank_formatter.cpp -o genbank_formatter.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastsetup_unit_test.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbitime.hpp:65, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_system.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbifile.hpp:53, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/util/util_misc.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastsetup_unit_test.cpp:34: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gather_items.cpp:73: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/gather_items.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gather_items.cpp:100: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 322 | auto_ptr m_pOpticalMapPointsDestroyer; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 479 | auto_ptr m_Selector; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gather_items.cpp:101: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/gather_iter.hpp:78:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 78 | auto_ptr m_BioseqIter; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastsetup_unit_test.cpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gather_items.cpp: In member function 'void ncbi::objects::CFlatGatherer::x_SubtractFromFocus(TSourceFeatSet&) const': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gather_items.cpp:2144:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 2144 | auto_ptr copyOfOriginalSeqLocOfFocus( new CSeq_loc() ); - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/context.cpp:51: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastsetup_unit_test.cpp:39: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/context.cpp:35: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -50418,6 +50934,16 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +BUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/format_item_ostream.cpp -o format_item_ostream.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/item_ostream.cpp -o item_ostream.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/ostream_text_ostream.cpp -o ostream_text_ostream.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/origin_item.cpp -o origin_item.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/ftable_gather.cpp -o ftable_gather.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/ftable_formatter.cpp -o ftable_formatter.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gather_items.cpp: At global scope: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gather_items.cpp:971:13: warning: 'bool ncbi::objects::s_NsAreGaps(const CBioseq_Handle&, CBioseqContext&)' defined but not used [-Wunused-function] + 971 | static bool s_NsAreGaps(const CBioseq_Handle& seq, CBioseqContext& ctx) + | ^~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, @@ -50429,152 +50955,45 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/mapped_feat.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/feature.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:48, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/item_formatter.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/embl_formatter.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/embl_formatter.cpp:43: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/embl_formatter.cpp:34: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/context.cpp:56: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -RGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/deltablast_args.cpp -o deltablast_args.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/magicblast_args.cpp -o magicblast_args.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/kblastp_args.cpp -o kblastp_args.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/blast_asn1_input.cpp -o blast_asn1_input.o -/bin/rm -f libblastinput.so .libblastinput.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libblastinput.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC blast_input.o blast_fasta_input.o blast_scope_src.o blast_args.o cmdline_flags.o blast_input_aux.o blastp_args.o blastn_args.o rmblastn_args.o blastx_args.o tblastn_args.o tblastx_args.o psiblast_args.o rpsblast_args.o rpstblastn_args.o igblastn_args.o igblastp_args.o deltablast_args.o magicblast_args.o kblastp_args.o blast_asn1_input.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxblast -lalign_format -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lseqdb -lxobjread -lxobjread -lvariation -lsubmit -lxlogging -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -lxutil -lncbi_xloader_genbank -lncbi_xreader_id2 -lncbi_xreader -lscoremat -lseqset -lseq -lxser -lxutil -lxncbi -llmdb -lpthread -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libblastinput.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libblastinput.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libblastinput.so -/bin/lnIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api/dust_filter.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastsetup_unit_test.cpp:45: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:159:14: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 159 | std::auto_ptr< TMaskList > operator()( const sequence_type & seq ); - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:168:14: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 168 | std::auto_ptr< TMaskList > operator()( const sequence_type & seq, - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ - -f .blastinput.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.blastinput.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/blastinput' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/blastinput' -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=gapinfo_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genbank_formatter.cpp: At global scope: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genbank_formatter.cpp:281:15: warning: 'std::string ncbi::objects::s_get_anchor_html(const std::string&, ncbi::TGi)' defined but not used [-Wunused-function] + 281 | static string s_get_anchor_html(const string & sAnchorName, TGi iGi ) + | ^~~~~~~~~~~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=blastextend_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastextend_unit_test.cpp -o blastextend_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie blastextend_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o blastextend_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blastextend_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f blastextend_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blastextend_unit_test +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=gencode_singleton_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genbank_gather.cpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genbank_gather.cpp:34: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=gapinfo_unit_test -w -j12 --jobserver-auth=7,8 all -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:49: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/flat_file_generator.cpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/flat_file_generator.cpp:33: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=gencode_singleton_unit_test -w -j12 --jobserver-auth=7,8 all +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api/dust_filter.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastsetup_unit_test.cpp:45: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:159:14: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 159 | std::auto_ptr< TMaskList > operator()( const sequence_type & seq ); + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 322 | auto_ptr m_pOpticalMapPointsDestroyer; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:168:14: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 168 | std::auto_ptr< TMaskList > operator()( const sequence_type & seq, + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/gapinfo_unit_test.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/gencode_singleton_unit_test.cpp:39: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -50683,21 +51102,52 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 479 | auto_ptr m_Selector; +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=aalookup_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/aalookup_unit_test.cpp -o aalookup_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie aalookup_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o aalookup_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f aalookup_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f aalookup_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/aalookup_unit_test +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=hspfilter_besthit_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=hspfilter_besthit_unit_test -w -j12 --jobserver-auth=7,8 all +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/mapped_feat.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/feature.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:48, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/origin_item.cpp:42: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/origin_item.cpp:33: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastsetup_unit_test.cpp: In member function 'void BlastSetup::SetupSubjectsProt::test_method()': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastsetup_unit_test.cpp:485:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 485 | auto_ptr sseqloc(CTestObjMgr::Instance().CreateSSeqLoc(id)); @@ -50735,15 +51185,120 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastsetup_unit_test.cpp:576:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 576 | auto_ptr sl(m_Om->CreateSSeqLoc(id, kRange, kStrand)); | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/hspfilter_besthit_unit_test.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:85: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:77: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastsetup_unit_test.cpp: In member function 'void BlastSetup::SetupSubjectsNuclBothStrandFiltered::test_method()': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastsetup_unit_test.cpp:603:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 603 | auto_ptr sl(m_Om->CreateSSeqLoc(id, kRange, kStrand)); @@ -50764,9 +51319,18 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/feature_item.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/ftable_gather.cpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/ftable_gather.cpp:34: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -50783,6 +51347,9 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastsetup_unit_test.cpp: In member function 'void BlastSetup::SetupSubjectsNuclBothStrand::test_method()': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastsetup_unit_test.cpp:685:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 685 | auto_ptr sl(m_Om->CreateSSeqLoc(id, range, kStrand)); @@ -50790,6 +51357,15 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastsetup_unit_test.cpp:688:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 688 | auto_ptr | ^~~~~~~~ @@ -50817,21 +51393,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/item_formatter.cpp:48: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/item_formatter.cpp:34: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastsetup_unit_test.cpp: In member function 'void BlastSetup::GetGapInSequenceNCBI2NA::test_method()': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastsetup_unit_test.cpp:811:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 811 | auto_ptr sl( @@ -50839,9 +51400,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastsetup_unit_test.cpp: In member function 'void BlastSetup::testEffSearchSpaceCalculator_Ungapped::test_method()': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastsetup_unit_test.cpp:952:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 952 | auto_ptr sseqloc(CTestObjMgr::Instance().CreateSSeqLoc(id)); @@ -50868,15 +51426,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastsetup_unit_test.cpp: In member function 'void BlastSetup::testMitochondrialGeneticCode::test_method()': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastsetup_unit_test.cpp:1046:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 1046 | auto_ptr sl(CTestObjMgr::Instance().CreateSSeqLoc(id, @@ -50917,10 +51466,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gather_items.cpp: At global scope: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gather_items.cpp:971:13: warning: 'bool ncbi::objects::s_NsAreGaps(const CBioseq_Handle&, CBioseqContext&)' defined but not used [-Wunused-function] - 971 | static bool s_NsAreGaps(const CBioseq_Handle& seq, CBioseqContext& ctx) - | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastsetup_unit_test.cpp: In member function 'void BlastSetup::GetMixedFrameQuery::test_method()': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastsetup_unit_test.cpp:1323:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 1323 | auto_ptr sl(CTestObjMgr::Instance().CreateSSeqLoc(id, @@ -50935,325 +51480,52 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/context.cpp:64: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 322 | auto_ptr m_pOpticalMapPointsDestroyer; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 479 | auto_ptr m_Selector; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/flat_file_generator.cpp:44: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genbank_formatter.cpp:43: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genbank_formatter.cpp:35: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=blastengine_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastengine_unit_test.cpp -o blastengine_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie blastengine_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o blastengine_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blastengine_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f blastengine_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blastengine_unit_test +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=gapinfo_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/gapinfo_unit_test.cpp -o gapinfo_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie gapinfo_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxconnect -lxncbi -llmdb -lpthread -lm -lpthread -o gapinfo_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f gapinfo_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f gapinfo_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/gapinfo_unit_test make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=gencode_singleton_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=hspfilter_culling_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=gencode_singleton_unit_test -w -j12 --jobserver-auth=7,8 all -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/flat_file_generator.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/flat_file_generator.cpp:50: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 322 | auto_ptr m_pOpticalMapPointsDestroyer; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/item_formatter.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/item_formatter.cpp:51: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 322 | auto_ptr m_pOpticalMapPointsDestroyer; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 479 | auto_ptr m_Selector; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 479 | auto_ptr m_Selector; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/item_formatter.cpp:59: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/gbseq_formatter.hpp:105:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 105 | auto_ptr m_Out; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=blastextend_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastextend_unit_test.cpp -o blastextend_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie blastextend_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o blastextend_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blastextend_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f blastextend_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blastextend_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=hspfilter_besthit_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=aalookup_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/aalookup_unit_test.cpp -o aalookup_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie aalookup_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o aalookup_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f aalookup_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f aalookup_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/aalookup_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/gencode_singleton_unit_test.cpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:85: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:77: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^~~~~~~~~~~~~~~~~~~~~~~ -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=hspfilter_culling_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:49: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=hspfilter_culling_unit_test -w -j12 --jobserver-auth=7,8 all make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=aascan_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/aascan_unit_test.cpp -o aascan_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie aascan_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o aascan_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f aascan_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f aascan_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/aascan_unit_test make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=hspstream_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=hspfilter_besthit_unit_test -w -j12 --jobserver-auth=7,8 all make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=hspfilter_culling_unit_test -w -j12 --jobserver-auth=7,8 all -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=hspstream_unit_test -w -j12 --jobserver-auth=7,8 all In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/hspfilter_besthit_unit_test.cpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/hspfilter_culling_unit_test.cpp:37: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -51362,9 +51634,7 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/item_formatter.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/genbank_formatter.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genbank_formatter.cpp:47: +make[5]: warning: -j12 forced in submake: resetting jobserver mode. /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 322 | auto_ptr m_pOpticalMapPointsDestroyer; | ^~~~~~~~ @@ -51379,7 +51649,7 @@ | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/hspfilter_culling_unit_test.cpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/hspstream_unit_test.cpp:37: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -51488,21 +51758,16 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -BUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/format_item_ostream.cpp -o format_item_ostream.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/item_ostream.cpp -o item_ostream.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/ostream_text_ostream.cpp -o ostream_text_ostream.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/origin_item.cpp -o origin_item.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/ftable_gather.cpp -o ftable_gather.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/ftable_formatter.cpp -o ftable_formatter.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genbank_formatter.cpp: In member function 'virtual void ncbi::objects::CGenbankFormatter::FormatSequence(const ncbi::objects::CSequenceItem&, ncbi::objects::IFlatTextOStream&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genbank_formatter.cpp:2048:18: warning: catching polymorphic type 'class ncbi::objects::CSeqVectorException' by value [-Wcatch-value=] - 2048 | } catch (CSeqVectorException) { - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genbank_formatter.cpp:2089:26: warning: catching polymorphic type 'class ncbi::objects::CSeqVectorException' by value [-Wcatch-value=] - 2089 | } catch (CSeqVectorException) { - | ^~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/gather_items.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genbank_gather.cpp:66: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:49, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/gather_items.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/ftable_gather.cpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 322 | auto_ptr m_pOpticalMapPointsDestroyer; | ^~~~~~~~ @@ -51515,14 +51780,54 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=aascan_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/aascan_unit_test.cpp -o aascan_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie aascan_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o aascan_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f aascan_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f aascan_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/aascan_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=hspstream_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/mapped_feat.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/feature.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:48, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/item_formatter.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/ftable_formatter.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/ftable_formatter.cpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/ftable_formatter.cpp:34: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:49: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/igblast' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/igblast/igblast.cpp -o igblast.o +/bin/rm -f libigblast.so .libigblast.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libigblast.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC igblast.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxconnect -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -llmdb -lpthread -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libigblast.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libigblast.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libigblast.so +/bin/ln -f .igblast.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.igblast.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/igblast' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/igblast' +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=linkhsp_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' @@ -51531,11 +51836,29 @@ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=hspstream_unit_test -w -j12 --jobserver-auth=7,8 all +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=linkhsp_unit_test -w -j12 --jobserver-auth=7,8 all +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 322 | auto_ptr m_pOpticalMapPointsDestroyer; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ make[5]: warning: -j12 forced in submake: resetting jobserver mode. -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 479 | auto_ptr m_Selector; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gbseq_formatter.cpp -o gbseq_formatter.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/flat_file_config.cpp -o flat_file_config.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/alignment_item.cpp -o alignment_item.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gap_item.cpp -o gap_item.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genome_project_item.cpp -o genome_project_item.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/sam_formatter.cpp -o sam_formatter.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/hspstream_unit_test.cpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/linkhsp_unit_test.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -51644,67 +51967,58 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/mapped_feat.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/feature.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:48, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/origin_item.cpp:42: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/origin_item.cpp:33: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/ftable_formatter.cpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../core -DNCBI_APP_BUILT_AS=blasthits_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blasthits_unit_test.cpp -o blasthits_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie blasthits_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o blasthits_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blasthits_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f blasthits_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blasthits_unit_test +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/igblast' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/igblast/igblast.cpp -o igblast.o -/bin/rm -f libigblast.so .libigblast.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libigblast.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC igblast.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxconnect -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -llmdb -lpthread -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libigblast.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libigblast.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libigblast.so -/bin/ln -f .igblast.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.igblast.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/igblast' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/igblast' -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=linkhsp_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=msa2pssm_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genbank_formatter.cpp: At global scope: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genbank_formatter.cpp:281:15: warning: 'std::string ncbi::objects::s_get_anchor_html(const std::string&, ncbi::TGi)' defined but not used [-Wunused-function] - 281 | static string s_get_anchor_html(const string & sAnchorName, TGi iGi ) - | ^~~~~~~~~~~~~~~~~ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=linkhsp_unit_test -w -j12 --jobserver-auth=7,8 all +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=msa2pssm_unit_test -w -j12 --jobserver-auth=7,8 all make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=gapinfo_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/gapinfo_unit_test.cpp -o gapinfo_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie gapinfo_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxconnect -lxncbi -llmdb -lpthread -lm -lpthread -o gapinfo_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f gapinfo_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f gapinfo_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/gapinfo_unit_test +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=blastengine_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastengine_unit_test.cpp -o blastengine_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie blastengine_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o blastengine_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blastengine_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f blastengine_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blastengine_unit_test +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=ntlookup_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=ntlookup_unit_test -w -j12 --jobserver-auth=7,8 all +make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/linkhsp_unit_test.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/ntlookup_unit_test.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -51813,59 +52127,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=msa2pssm_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/feature_item.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/ftable_gather.cpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/ftable_gather.cpp:34: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=msa2pssm_unit_test -w -j12 --jobserver-auth=7,8 all -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:49: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 322 | auto_ptr m_pOpticalMapPointsDestroyer; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/msa2pssm_unit_test.cpp:37: @@ -51977,19 +52238,38 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 479 | auto_ptr m_Selector; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/gencode_singleton_unit_test.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:37: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/mapped_feat.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/feature.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:48, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/item_formatter.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/ftable_formatter.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/ftable_formatter.cpp:39: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/alignment_item.cpp:38: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -51997,7 +52277,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/ftable_formatter.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/alignment_item.cpp:33: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -52013,43 +52293,44 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=hspfilter_besthit_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/hspfilter_besthit_unit_test.cpp -o hspfilter_besthit_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie hspfilter_besthit_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -llmdb -lpthread -lm -lpthread -o hspfilter_besthit_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f hspfilter_besthit_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f hspfilter_besthit_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/hspfilter_besthit_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=ntlookup_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:49, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/gather_items.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/ftable_gather.cpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_explorer.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmap.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/cigar_formatter.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/sam_formatter.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Dense_seg_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Dense_seg.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmap.hpp:36: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=ntlookup_unit_test -w -j12 --jobserver-auth=7,8 all -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 322 | auto_ptr m_pOpticalMapPointsDestroyer; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/gencode_singleton_unit_test.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/mapped_feat.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/feature.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:48, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genome_project_item.cpp:43: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -52057,13 +52338,23 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genome_project_item.cpp:33: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 479 | auto_ptr m_Selector; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/feature_item.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/flat_file_config.cpp:45: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/flat_file_config.hpp:34, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/flat_file_config.cpp:33: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -52079,7 +52370,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gbseq_formatter.cpp:49: @@ -52106,135 +52396,38 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/ntlookup_unit_test.cpp:34: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:85: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:77: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^~~~~~~~~~~~~~~~~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=hspfilter_culling_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/hspfilter_culling_unit_test.cpp -o hspfilter_culling_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie hspfilter_culling_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -llmdb -lpthread -lm -lpthread -o hspfilter_culling_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f hspfilter_culling_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f hspfilter_culling_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/hspfilter_culling_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=ntscan_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer/unit_test' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=proteinkmer_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/unit_test/proteinkmer_unit_test.cpp -o proteinkmer_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie proteinkmer_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lproteinkmer -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o proteinkmer_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f proteinkmer_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f proteinkmer_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/proteinkmer_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer/unit_test' -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer/unit_test' -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=optionshandle_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:49: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 322 | auto_ptr m_pOpticalMapPointsDestroyer; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 479 | auto_ptr m_Selector; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:49: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] @@ -52243,11 +52436,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, @@ -52258,51 +52446,74 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../core -DNCBI_APP_BUILT_AS=blasthits_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blasthits_unit_test.cpp -o blasthits_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie blasthits_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o blasthits_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blasthits_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f blasthits_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blasthits_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=ntscan_unit_test -w -j12 --jobserver-auth=7,8 all -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=optionshandle_unit_test -w -j12 --jobserver-auth=7,8 all -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=phiblast_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: warning: -j12 forced in submake: resetting jobserver mode. /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 322 | auto_ptr m_pOpticalMapPointsDestroyer; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 479 | auto_ptr m_Selector; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/sam_formatter.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genome_project_item.cpp: In member function 'virtual void ncbi::objects::CGenomeProjectItem::x_GatherInfo(ncbi::objects::CBioseqContext&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genome_project_item.cpp:274:21: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 274 | auto_ptr pStrsDestroyer; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genome_project_item.cpp:305:21: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 305 | auto_ptr pIntsDestroyer; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer/unit_test' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=proteinkmer_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/unit_test/proteinkmer_unit_test.cpp -o proteinkmer_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie proteinkmer_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lproteinkmer -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o proteinkmer_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f proteinkmer_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f proteinkmer_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/proteinkmer_unit_test +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer/unit_test' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer/unit_test' +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=ntscan_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=phiblast_unit_test -w -j12 --jobserver-auth=7,8 all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=ntscan_unit_test -w -j12 --jobserver-auth=7,8 all +make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/optionshandle_unit_test.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/ntscan_unit_test.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -52411,10 +52622,40 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=hspfilter_besthit_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/hspfilter_besthit_unit_test.cpp -o hspfilter_besthit_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie hspfilter_besthit_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -llmdb -lpthread -lm -lpthread -o hspfilter_besthit_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f hspfilter_besthit_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f hspfilter_besthit_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/hspfilter_besthit_unit_test +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=optionshandle_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=optionshandle_unit_test -w -j12 --jobserver-auth=7,8 all make[5]: warning: -j12 forced in submake: resetting jobserver mode. +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/linkhsp_unit_test.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/ntscan_unit_test.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/optionshandle_unit_test.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -52523,7 +52764,122 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/linkhsp_unit_test.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/item_formatter.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/gbseq_formatter.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gbseq_formatter.cpp:55: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 322 | auto_ptr m_pOpticalMapPointsDestroyer; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 479 | auto_ptr m_Selector; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/gbseq_formatter.hpp:105:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 105 | auto_ptr m_Out; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gather_iter.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/gather_iter.hpp:78:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 78 | auto_ptr m_BioseqIter; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/gather_iter.hpp:37: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/linkhsp_unit_test.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/test_objmgr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/hspstream_unit_test.cpp:42: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=hspfilter_culling_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/hspfilter_culling_unit_test.cpp -o hspfilter_culling_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie hspfilter_culling_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -llmdb -lpthread -lm -lpthread -o hspfilter_culling_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f hspfilter_culling_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f hspfilter_culling_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/hspfilter_culling_unit_test +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=phiblast_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=phiblast_unit_test -w -j12 --jobserver-auth=7,8 all +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/ntlookup_unit_test.cpp:37: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ @@ -52647,47 +53003,68 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/ftable_formatter.cpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/cigar_formatter.cpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/msa2pssm_unit_test.cpp:34: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Dense_seg_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Dense_seg.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/cigar_formatter.cpp:35: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:37: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/item_formatter.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/gbseq_formatter.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gbseq_formatter.cpp:55: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 322 | auto_ptr m_pOpticalMapPointsDestroyer; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 479 | auto_ptr m_Selector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/feature_item.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/flat_file_config.cpp:45: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/mapped_feat.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/feature.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:48, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/html_anchor_item.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -52695,11 +53072,9 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/flat_file_config.hpp:34, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/flat_file_config.cpp:33: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/item_base.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/html_anchor_item.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/html_anchor_item.cpp:34: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -52715,27 +53090,22 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/gbseq_formatter.hpp:105:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 105 | auto_ptr m_Out; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gbseq_formatter.cpp -o gbseq_formatter.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/flat_file_config.cpp -o flat_file_config.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/alignment_item.cpp -o alignment_item.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gap_item.cpp -o gap_item.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genome_project_item.cpp -o genome_project_item.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/sam_formatter.cpp -o sam_formatter.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/linkhsp_unit_test.cpp:38: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gather_iter.cpp:42: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=blastoptions_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastoptions_unit_test.cpp -o blastoptions_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie blastoptions_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o blastoptions_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blastoptions_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f blastoptions_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blastoptions_unit_test +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ @@ -52748,12 +53118,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=blastoptions_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastoptions_unit_test.cpp -o blastoptions_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie blastoptions_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o blastoptions_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blastoptions_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f blastoptions_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blastoptions_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=prelimsearch_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' @@ -52923,78 +53287,78 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/ntlookup_unit_test.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/msa2pssm_unit_test.cpp: In member function 'void msa2pssm::QueryNotFoundInMsa::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/msa2pssm_unit_test.cpp:55:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 55 | auto_ptr pssm_input; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/msa2pssm_unit_test.cpp:34: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:49: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/test_objmgr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/hspstream_unit_test.cpp:42: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 322 | auto_ptr m_pOpticalMapPointsDestroyer; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/msa2pssm_unit_test.cpp: In member function 'void msa2pssm::QueryNotFoundInMsa::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/msa2pssm_unit_test.cpp:55:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 55 | auto_ptr pssm_input; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gather_iter.cpp: In member function 'bool ncbi::objects::CGather_Iter::x_AddSeqEntryToStack(const ncbi::objects::CSeq_entry_Handle&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gather_iter.cpp:145:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 145 | auto_ptr seq_iter( new CBioseq_CI(entry, mol_type, CBioseq_CI::eLevel_Mains) ); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 479 | auto_ptr m_Selector; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -53013,18 +53377,11 @@ 65 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/mapped_feat.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/feature.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:48, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/alignment_item.cpp:38: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/ntlookup_unit_test.cpp:38: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/alignment_item.cpp:33: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -53040,34 +53397,154 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/ntlookup_unit_test.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=gencode_singleton_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/gencode_singleton_unit_test.cpp -o gencode_singleton_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie gencode_singleton_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -llmdb -lpthread -lm -lpthread -o gencode_singleton_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f gencode_singleton_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f gencode_singleton_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/gencode_singleton_unit_test +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=psibl2seq_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=psibl2seq_unit_test -w -j12 --jobserver-auth=7,8 all +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/psibl2seq_unit_test.cpp:34: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:85: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:77: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/ntlookup_unit_test.cpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_explorer.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmap.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/cigar_formatter.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/sam_formatter.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/optionshandle_unit_test.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -53075,10 +53552,8 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Dense_seg_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Dense_seg.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmap.hpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -53115,10 +53590,10 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/cigar_formatter.cpp:39: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/gene_finder.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gene_finder.cpp:38: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -53126,10 +53601,9 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Dense_seg_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Dense_seg.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/cigar_formatter.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:43: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -53145,7 +53619,7 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/ntlookup_unit_test.cpp:40: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/ntscan_unit_test.cpp:40: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 364 | auto_ptr &feat_ci, | ^~~~~~~~ @@ -53158,150 +53632,38 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:49: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=gencode_singleton_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/gencode_singleton_unit_test.cpp -o gencode_singleton_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie gencode_singleton_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -llmdb -lpthread -lm -lpthread -o gencode_singleton_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f gencode_singleton_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f gencode_singleton_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/gencode_singleton_unit_test +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=hspstream_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/hspstream_unit_test.cpp -o hspstream_unit_test.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=hspstream_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/hspstream_test_util.cpp -o hspstream_test_util.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie hspstream_unit_test.o hspstream_test_util.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -llmdb -lpthread -lm -lpthread -o hspstream_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f hspstream_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f hspstream_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/hspstream_unit_test make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=psibl2seq_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=psiblast_iteration_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 322 | auto_ptr m_pOpticalMapPointsDestroyer; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 479 | auto_ptr m_Selector; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=psibl2seq_unit_test -w -j12 --jobserver-auth=7,8 all -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/mapped_feat.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/feature.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:48, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genome_project_item.cpp:43: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genome_project_item.cpp:33: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=psiblast_iteration_unit_test -w -j12 --jobserver-auth=7,8 all make[5]: warning: -j12 forced in submake: resetting jobserver mode. -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/phiblast_unit_test.cpp:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/sam_formatter.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/ntlookup_unit_test.cpp: In member function 'void NtlookupTestFixture::SetUpQuery(Uint4)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/ntlookup_unit_test.cpp:99:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 99 | auto_ptr ssl(CTestObjMgr::Instance().CreateSSeqLoc( + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/psibl2seq_unit_test.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/psiblast_iteration_unit_test.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/ntscan_unit_test.cpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ @@ -53407,6 +53769,16 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/gene_finder.hpp:42: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 364 | auto_ptr &feat_ci, | ^~~~~~~~ @@ -53419,20 +53791,10 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:49: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/optionshandle_unit_test.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/phiblast_unit_test.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -53457,71 +53819,12 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/ntlookup_unit_test.cpp: In member function 'void NtlookupTestFixture::SetUpQuery(Uint4)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/ntlookup_unit_test.cpp:99:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 99 | auto_ptr ssl(CTestObjMgr::Instance().CreateSSeqLoc( - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 322 | auto_ptr m_pOpticalMapPointsDestroyer; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 479 | auto_ptr m_Selector; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genome_project_item.cpp: In member function 'virtual void ncbi::objects::CGenomeProjectItem::x_GatherInfo(ncbi::objects::CBioseqContext&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genome_project_item.cpp:274:21: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 274 | auto_ptr pStrsDestroyer; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genome_project_item.cpp:305:21: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 305 | auto_ptr pIntsDestroyer; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gather_iter.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/gather_iter.hpp:78:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 78 | auto_ptr m_BioseqIter; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/gather_iter.hpp:37: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/ntscan_unit_test.cpp: In member function 'void TestFixture::SetUpQuery(Uint4, ncbi::objects::ENa_strand)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/ntscan_unit_test.cpp:127:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 127 | auto_ptr ssl(CTestObjMgr::Instance().CreateSSeqLoc(id,strand)); - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/ntscan_unit_test.cpp: In member function 'void TestFixture::SetUpSubject(Uint4)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/ntscan_unit_test.cpp:197:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 197 | auto_ptr - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/mapped_feat.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/feature.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:48, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/html_anchor_item.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/prelimsearch_unit_test.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -53529,9 +53832,8 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/item_base.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/html_anchor_item.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/html_anchor_item.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -53547,51 +53849,27 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/gene_finder.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gene_finder.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/gene_finder.hpp:44: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 322 | auto_ptr m_pOpticalMapPointsDestroyer; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:43: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 479 | auto_ptr m_Selector; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/gene_finder.hpp:113:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 113 | auto_ptr &feat_ci, | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:49: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 322 | auto_ptr m_pOpticalMapPointsDestroyer; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 479 | auto_ptr m_Selector; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gene_finder.cpp:78:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 78 | auto_ptr &feat_ci, | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -53602,80 +53880,66 @@ /bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f msa2pssm_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin /bin/ln -f msa2pssm_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/msa2pssm_unit_test make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=psiblast_iteration_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=hspstream_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/hspstream_unit_test.cpp -o hspstream_unit_test.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=hspstream_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/hspstream_test_util.cpp -o hspstream_test_util.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie hspstream_unit_test.o hspstream_test_util.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -llmdb -lpthread -lm -lpthread -o hspstream_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f hspstream_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f hspstream_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/hspstream_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/ntscan_unit_test.cpp: In member function 'void TestFixture::SetUpQuery(Uint4, ncbi::objects::ENa_strand)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/ntscan_unit_test.cpp:127:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 127 | auto_ptr ssl(CTestObjMgr::Instance().CreateSSeqLoc(id,strand)); + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/blastdb/bdbloader.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blast_test_util.hpp:56, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/prelimsearch_unit_test.cpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=pssmcreate_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=psiblast_iteration_unit_test -w -j12 --jobserver-auth=7,8 all +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/ntscan_unit_test.cpp: In member function 'void TestFixture::SetUpSubject(Uint4)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/ntscan_unit_test.cpp:197:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 197 | auto_ptr + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=pssmcreate_unit_test -w -j12 --jobserver-auth=7,8 all -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/gene_finder.hpp:42: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/prelimsearch_unit_test.cpp: In member function 'void prelimsearch::SplitNucleotideQuery::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/prelimsearch_unit_test.cpp:144:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 144 | auto_ptr q_ssl(CTestObjMgr::Instance().CreateSSeqLoc(q_id, kRange, kStrand)); | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/prelimsearch_unit_test.cpp:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/prelimsearch_unit_test.cpp: In member function 'void prelimsearch::BuildCStd_seg_blastn::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/prelimsearch_unit_test.cpp:173:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 173 | auto_ptr q_ssl(CTestObjMgr::Instance().CreateSSeqLoc(q_id, kRange, kStrand)); | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/prelimsearch_unit_test.cpp: In member function 'void prelimsearch::BuildCStd_seg_tblastx::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/prelimsearch_unit_test.cpp:210:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 210 | auto_ptr q_ssl(CTestObjMgr::Instance().CreateSSeqLoc(q_id, kRange, kStrand)); | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/psiblast_iteration_unit_test.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_unit_test.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -53784,21 +54048,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_unit_test.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_cdd_unit_test.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -54018,9 +54270,66 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/psibl2seq.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/psibl2seq_unit_test.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/simple/simple_om.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/psibl2seq_unit_test.cpp:50: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=linkhsp_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/linkhsp_unit_test.cpp -o linkhsp_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie linkhsp_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o linkhsp_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f linkhsp_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f linkhsp_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/linkhsp_unit_test +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=pssmenginefreqratios_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=pssmenginefreqratios_unit_test -w -j12 --jobserver-auth=7,8 all +make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_cdd_unit_test.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmenginefreqratios_unit_test.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -54129,38 +54438,64 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/gene_finder.hpp:44: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 322 | auto_ptr m_pOpticalMapPointsDestroyer; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/blastdb/bdbloader.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blast_test_util.hpp:56, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssm_test_util.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 479 | auto_ptr m_Selector; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_unit_test.cpp:64: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/gene_finder.hpp:113:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 113 | auto_ptr &feat_ci, - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gene_finder.cpp:78:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 78 | auto_ptr &feat_ci, - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gather_iter.cpp:42: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/pssm_engine.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_cdd_unit_test.cpp:58: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -54176,169 +54511,138 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/blastdb/bdbloader.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blast_test_util.hpp:56, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/prelimsearch_unit_test.cpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/prelimsearch_unit_test.cpp: In member function 'void prelimsearch::SplitNucleotideQuery::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/prelimsearch_unit_test.cpp:144:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 144 | auto_ptr q_ssl(CTestObjMgr::Instance().CreateSSeqLoc(q_id, kRange, kStrand)); +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api/blast_setup.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api/blast_objmgr_priv.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssm_test_util.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssm_test_util.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/prelimsearch_unit_test.cpp: In member function 'void prelimsearch::BuildCStd_seg_blastn::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/prelimsearch_unit_test.cpp:173:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 173 | auto_ptr q_ssl(CTestObjMgr::Instance().CreateSSeqLoc(q_id, kRange, kStrand)); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/prelimsearch_unit_test.cpp: In member function 'void prelimsearch::BuildCStd_seg_tblastx::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/prelimsearch_unit_test.cpp:210:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 210 | auto_ptr q_ssl(CTestObjMgr::Instance().CreateSSeqLoc(q_id, kRange, kStrand)); - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/blastdb/bdbloader.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blast_test_util.hpp:56, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_cdd_unit_test.cpp:67: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, +2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/cigar_formatter.cpp -o cigar_formatter.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gather_iter.cpp -o gather_iter.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/html_anchor_item.cpp -o html_anchor_item.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/inst_info_map.cpp -o inst_info_map.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gene_finder.cpp -o gene_finder.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/flat_qual_slots.cpp -o flat_qual_slots.o +/bin/rm -f libxformat.so .libxformat.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libxformat.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC accession_item.o basecount_item.o comment_item.o contig_item.o date_item.o dbsource_item.o defline_item.o feature_item.o genome_item.o ctrl_items.o keywords_item.o locus_item.o primary_itemake[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=blastsetup_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastsetup_unit_test.cpp -o blastsetup_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie blastsetup_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o blastsetup_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blastsetup_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f blastsetup_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blastsetup_unit_test +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=querydata_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_cdd_unit_test.cpp: In member function 'void pssmcreate_cdd::TestConvertSeqalignToCdMsa::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_cdd_unit_test.cpp:511:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 511 | auto_ptr q(CTestObjMgr::Instance().CreateSSeqLoc(*qid)); | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_cdd_unit_test.cpp:514:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 514 | auto_ptr in + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gather_iter.cpp: In member function 'bool ncbi::objects::CGather_Iter::x_AddSeqEntryToStack(const ncbi::objects::CSeq_entry_Handle&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gather_iter.cpp:145:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 145 | auto_ptr seq_iter( new CBioseq_CI(entry, mol_type, CBioseq_CI::eLevel_Mains) ); - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_cdd_unit_test.cpp: In member function 'void pssmcreate_cdd::TestFullPssmEngineRunWithDiagnosticsRequest::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_cdd_unit_test.cpp:773:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 773 | auto_ptr in + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/psibl2seq.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/psibl2seq_unit_test.cpp:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_cdd_unit_test.cpp:781:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 781 | auto_ptr q(CTestObjMgr::Instance().CreateSSeqLoc(*qid)); + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_cdd_unit_test.cpp: In member function 'void pssmcreate_cdd::TestInternalGapsInSubject::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_cdd_unit_test.cpp:914:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 914 | auto_ptr q(CTestObjMgr::Instance().CreateSSeqLoc(*query_id)); | ^~~~~~~~ +make[5]: warning: -j12 forced in submake: resetting jobserver mode. /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/simple/simple_om.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/psibl2seq_unit_test.cpp:50: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_cdd_unit_test.cpp:933:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 933 | auto_ptr< CNcbiMatrix > pssm_scores( | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=phiblast_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/phiblast_unit_test.cpp -o phiblast_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie phiblast_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -llmdb -lpthread -lm -lpthread -o phiblast_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f phiblast_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f phiblast_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/phiblast_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=pssmenginefreqratios_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=pssmenginefreqratios_unit_test -w -j12 --jobserver-auth=7,8 all -make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/blastdb/bdbloader.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blast_test_util.hpp:56, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssm_test_util.cpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_unit_test.cpp:79: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_unit_test.cpp:64: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_cdd_unit_test.cpp: In member function 'void pssmcreate_cdd::TestNoDomainHits::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_cdd_unit_test.cpp:995:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 995 | auto_ptr q(CTestObjMgr::Instance().CreateSSeqLoc(*query_id)); | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_cdd_unit_test.cpp:1014:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1014 | auto_ptr< CNcbiMatrix > pssm_scores( | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_cdd_unit_test.cpp: In static member function 'static ncbi::CRef CPssmCddInputTest::CreatePssmInput(EType)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_cdd_unit_test.cpp:1147:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1147 | auto_ptr q(CTestObjMgr::Instance().CreateSSeqLoc(*query_id)); + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=querydata_unit_test -w -j12 --jobserver-auth=7,8 all +make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmenginefreqratios_unit_test.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/querydata_unit_test.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -54448,103 +54752,26 @@ 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=linkhsp_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/linkhsp_unit_test.cpp -o linkhsp_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie linkhsp_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o linkhsp_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f linkhsp_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f linkhsp_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/linkhsp_unit_test +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=psiblast_iteration_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/psiblast_iteration_unit_test.cpp -o psiblast_iteration_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie psiblast_iteration_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -llmdb -lpthread -lm -lpthread -o psiblast_iteration_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f psiblast_iteration_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f psiblast_iteration_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/psiblast_iteration_unit_test make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api/blast_setup.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api/blast_objmgr_priv.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssm_test_util.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssm_test_util.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/pssm_engine.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_cdd_unit_test.cpp:58: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=querydata_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=queryinfo_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/blastdb/bdbloader.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blast_test_util.hpp:56, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_unit_test.cpp:79: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=querydata_unit_test -w -j12 --jobserver-auth=7,8 all +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=queryinfo_unit_test -w -j12 --jobserver-auth=7,8 all make[5]: warning: -j12 forced in submake: resetting jobserver mode. -2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/cigar_formatter.cpp -o cigar_formatter.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gather_iter.cpp -o gather_iter.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/html_anchor_item.cpp -o html_anchor_item.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/inst_info_map.cpp -o inst_info_map.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gene_finder.cpp -o gene_finder.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/flat_qual_slots.cpp -o flat_qual_slots.o -/bin/rm -f libxformat.so .libxformat.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libxformat.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIC accession_item.o basecount_item.o comment_item.o contig_item.o date_item.o dbsource_item.o defline_item.o feature_item.o genome_item.o ctrl_items.o keywords_item.o locus_item.o primary_itemake[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=blastfilter_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp -o blastfilter_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie blastfilter_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o blastfilter_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blastfilter_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f blastfilter_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blastfilter_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/querydata_unit_test.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/queryinfo_unit_test.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -54653,8 +54880,14 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=phiblast_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/phiblast_unit_test.cpp -o phiblast_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie phiblast_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -llmdb -lpthread -lm -lpthread -o phiblast_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f phiblast_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f phiblast_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/phiblast_unit_test +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=queryinfo_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=remote_blast_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' @@ -54663,80 +54896,24 @@ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=queryinfo_unit_test -w -j12 --jobserver-auth=7,8 all -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/blastdb/bdbloader.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blast_test_util.hpp:56, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_cdd_unit_test.cpp:67: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=remote_blast_unit_test -w -j12 --jobserver-auth=7,8 all make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_cdd_unit_test.cpp: In member function 'void pssmcreate_cdd::TestConvertSeqalignToCdMsa::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_cdd_unit_test.cpp:511:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 511 | auto_ptr q(CTestObjMgr::Instance().CreateSSeqLoc(*qid)); - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_cdd_unit_test.cpp:514:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 514 | auto_ptr in - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_cdd_unit_test.cpp: In member function 'void pssmcreate_cdd::TestFullPssmEngineRunWithDiagnosticsRequest::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_cdd_unit_test.cpp:773:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 773 | auto_ptr in - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_cdd_unit_test.cpp:781:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 781 | auto_ptr q(CTestObjMgr::Instance().CreateSSeqLoc(*qid)); +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_unit_test.cpp:84: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_cdd_unit_test.cpp: In member function 'void pssmcreate_cdd::TestInternalGapsInSubject::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_cdd_unit_test.cpp:914:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 914 | auto_ptr q(CTestObjMgr::Instance().CreateSSeqLoc(*query_id)); - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_cdd_unit_test.cpp:933:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 933 | auto_ptr< CNcbiMatrix > pssm_scores( - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_cdd_unit_test.cpp: In member function 'void pssmcreate_cdd::TestNoDomainHits::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_cdd_unit_test.cpp:995:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 995 | auto_ptr q(CTestObjMgr::Instance().CreateSSeqLoc(*query_id)); - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_cdd_unit_test.cpp:1014:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1014 | auto_ptr< CNcbiMatrix > pssm_scores( - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_cdd_unit_test.cpp: In static member function 'static ncbi::CRef CPssmCddInputTest::CreatePssmInput(EType)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_cdd_unit_test.cpp:1147:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1147 | auto_ptr q(CTestObjMgr::Instance().CreateSSeqLoc(*query_id)); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/queryinfo_unit_test.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/remote_blast_unit_test.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -54845,19 +55022,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_unit_test.cpp:84: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_unit_test.cpp: In member function 'void pssmcreate::testFullPssmEngineRunWithDiagnosticsRequest::test_method()': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_unit_test.cpp:574:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 574 | auto_ptr in @@ -54938,6 +55102,15 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +m.o reference_item.o segment_item.o sequence_item.o source_item.o version_item.o wgs_item.o tsa_item.o flat_seqloc.o qualifiers.o context.o gather_items.o embl_gather.o genbank_gather.o flat_file_generator.o item_formatter.o embl_formatter.o genbank_formatter.o format_item_ostream.o item_ostream.o ostream_text_ostream.o origin_item.o ftable_gather.o ftable_formatter.o gbseq_formatter.o flat_file_config.o alignment_item.o gap_item.o genome_project_item.o sam_formatter.o cigar_formatter.o gather_iter.o html_anchor_item.o inst_info_map.o gene_finder.o flat_qual_slots.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxcleanup -lvalid -lgbseq -lmlacli -lmla -lmedlars -lpubmed -lsubmit -lxalnmgr -lxobjutil -ltaxon3 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libxformat.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libxformat.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libxformat.so +/bin/ln -f .xformat.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.xformat.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/format' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/format' +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=rmblast_blasthits_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_unit_test.cpp: In member function 'void pssmcreate::testRejectFlankingGaps::test_method()': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_unit_test.cpp:1197:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 1197 | auto_ptr bad_pssm_data(new CPssmInputFlankingGaps()); @@ -54959,6 +55132,10 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_unit_test.cpp: In member function 'void pssmcreate::testRejectNullsReturnedByPssmInput::test_method()': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_unit_test.cpp:1219:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 1219 | auto_ptr bad_pssm_data(new CNullPssmInput()); @@ -54966,6 +55143,8 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_unit_test.cpp: In member function 'void pssmcreate::testRejectUnsupportedMatrix::test_method()': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_unit_test.cpp:1224:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 1224 | auto_ptr bad_pssm_data(new @@ -54973,14 +55152,16 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=rmblast_blasthits_unit_test -w -j12 --jobserver-auth=7,8 all +make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=blastsetup_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastsetup_unit_test.cpp -o blastsetup_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie blastsetup_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o blastsetup_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blastsetup_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f blastsetup_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blastsetup_unit_test +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=prelimsearch_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/prelimsearch_unit_test.cpp -o prelimsearch_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie prelimsearch_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o prelimsearch_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f prelimsearch_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f prelimsearch_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/prelimsearch_unit_test make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=remote_blast_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=rmblast_traceback_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' @@ -54989,17 +55170,11 @@ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=remote_blast_unit_test -w -j12 --jobserver-auth=7,8 all +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=rmblast_traceback_unit_test -w -j12 --jobserver-auth=7,8 all make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=ntlookup_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/ntlookup_unit_test.cpp -o ntlookup_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie ntlookup_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o ntlookup_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f ntlookup_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f ntlookup_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/ntlookup_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/remote_blast_unit_test.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rmblast_blasthits_unit_test.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -55108,38 +55283,19 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -m.o reference_item.o segment_item.o sequence_item.o source_item.o version_item.o wgs_item.o tsa_item.o flat_seqloc.o qualifiers.o context.o gather_items.o embl_gather.o genbank_gather.o flat_file_generator.o item_formatter.o embl_formatter.o genbank_formatter.o format_item_ostream.o item_ostream.o ostream_text_ostream.o origin_item.o ftable_gather.o ftable_formatter.o gbseq_formatter.o flat_file_config.o alignment_item.o gap_item.o genome_project_item.o sam_formatter.o cigar_formatter.o gather_iter.o html_anchor_item.o inst_info_map.o gene_finder.o flat_qual_slots.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxcleanup -lvalid -lgbseq -lmlacli -lmla -lmedlars -lpubmed -lsubmit -lxalnmgr -lxobjutil -ltaxon3 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libxformat.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libxformat.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libxformat.so -/bin/ln -f .xformat.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.xformat.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/format' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=ntlookup_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/ntlookup_unit_test.cpp -o ntlookup_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie ntlookup_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o ntlookup_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f ntlookup_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f ntlookup_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/ntlookup_unit_test +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=rmblast_blasthits_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/format' -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=rmblast_traceback_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=rps_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=rmblast_blasthits_unit_test -w -j12 --jobserver-auth=7,8 all -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=rmblast_traceback_unit_test -w -j12 --jobserver-auth=7,8 all -make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rmblast_blasthits_unit_test.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rmblast_traceback_unit_test.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -55248,9 +55404,35 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=blastfilter_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp -o blastfilter_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie blastfilter_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o blastfilter_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blastfilter_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f blastfilter_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blastfilter_unit_test +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=scoreblk_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=rps_unit_test -w -j12 --jobserver-auth=7,8 all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=scoreblk_unit_test -w -j12 --jobserver-auth=7,8 all +make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rmblast_traceback_unit_test.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rps_unit_test.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -55359,43 +55541,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=psiblast_iteration_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/psiblast_iteration_unit_test.cpp -o psiblast_iteration_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie psiblast_iteration_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -llmdb -lpthread -lm -lpthread -o psiblast_iteration_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f psiblast_iteration_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f psiblast_iteration_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/psiblast_iteration_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=rps_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=rps_unit_test -w -j12 --jobserver-auth=7,8 all -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=prelimsearch_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/prelimsearch_unit_test.cpp -o prelimsearch_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie prelimsearch_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o prelimsearch_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f prelimsearch_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f prelimsearch_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/prelimsearch_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=scoreblk_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rps_unit_test.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/scoreblk_unit_test.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -55533,119 +55681,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=scoreblk_unit_test -w -j12 --jobserver-auth=7,8 all -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/scoreblk_unit_test.cpp:34: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:85: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:77: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/blastdb/bdbloader.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blast_test_util.hpp:56, @@ -55685,8 +55720,8 @@ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/querydata_unit_test.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api/blast_setup.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rmblast_blasthits_unit_test.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -55711,54 +55746,11 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rmblast_traceback_unit_test.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/queryinfo_unit_test.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/simple/simple_om.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/querydata_unit_test.cpp:51: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/remote_blast_unit_test.cpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/querydata_unit_test.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -55793,18 +55785,6 @@ cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=search_strategy_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' @@ -55813,25 +55793,6 @@ make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=search_strategy_unit_test -w -j12 --jobserver-auth=7,8 all make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=ntscan_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/ntscan_unit_test.cpp -o ntscan_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie ntscan_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o ntscan_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f ntscan_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f ntscan_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/ntscan_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/querydata_unit_test.cpp:53: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/search_strategy_unit_test.cpp:34: @@ -55943,15 +55904,62 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=seqinfosrc_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/simple/simple_om.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/querydata_unit_test.cpp:51: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rmblast_traceback_unit_test.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/querydata_unit_test.cpp:53: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/querydata_unit_test.cpp: In static member function 'static void CQueryDataTestFixture::s_ObjMgr_QueryFactory_LocalDataFromTSeqLocVector(const std::vector&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/querydata_unit_test.cpp:520:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 520 | auto_ptr sl(CTestObjMgr::Instance().CreateSSeqLoc(qid)); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/querydata_unit_test.cpp: In member function 'void QueryData::ObjMgr_QueryFactory_RemoteData_SingleBioseqFromTSeqLocVector::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/querydata_unit_test.cpp:634:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 634 | auto_ptr sl(CTestObjMgr::Instance().CreateSSeqLoc(qid)); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api/blast_setup.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rmblast_blasthits_unit_test.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/prelim_stage.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/local_blast.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rps_unit_test.cpp:41: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -55976,6 +55984,28 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/queryinfo_unit_test.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rmblast_traceback_unit_test.cpp:38: @@ -55997,13 +56027,30 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 743 | auto_ptr m_ObjectStream; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rmblast_traceback_unit_test.cpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=ntscan_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/ntscan_unit_test.cpp -o ntscan_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie ntscan_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o ntscan_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f ntscan_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f ntscan_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/ntscan_unit_test +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=seqinfosrc_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' @@ -56011,6 +56058,29 @@ make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=seqinfosrc_unit_test -w -j12 --jobserver-auth=7,8 all make[5]: warning: -j12 forced in submake: resetting jobserver mode. +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/blastdb/bdbloader.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blast_test_util.hpp:56, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rps_unit_test.cpp:51: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rmblast_traceback_unit_test.cpp: In member function 'void traceback::testRMBlastTraceBack::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rmblast_traceback_unit_test.cpp:184:6: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 184 | auto_ptr qsl( + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rmblast_traceback_unit_test.cpp:187:6: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 187 | auto_ptr ssl( + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/seqinfosrc_unit_test.cpp:35: @@ -56122,135 +56192,39 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/remote_blast_unit_test.cpp:47: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/querydata_unit_test.cpp: In static member function 'static void CQueryDataTestFixture::s_ObjMgr_QueryFactory_LocalDataFromTSeqLocVector(const std::vector&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/querydata_unit_test.cpp:520:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 520 | auto_ptr sl(CTestObjMgr::Instance().CreateSSeqLoc(qid)); - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/querydata_unit_test.cpp: In member function 'void QueryData::ObjMgr_QueryFactory_RemoteData_SingleBioseqFromTSeqLocVector::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/querydata_unit_test.cpp:634:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 634 | auto_ptr sl(CTestObjMgr::Instance().CreateSSeqLoc(qid)); - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/prelim_stage.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/local_blast.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rps_unit_test.cpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/queryinfo_unit_test.cpp: In member function 'void QueryInfo::ProteinGetQueryInfo::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/queryinfo_unit_test.cpp:57:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 57 | auto_ptr qsl(CTestObjMgr::Instance().CreateSSeqLoc(id)); - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/queryinfo_unit_test.cpp: In member function 'void QueryInfo::EmptyBlastxGetQueryInfo::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/queryinfo_unit_test.cpp:80:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 80 | auto_ptr qsl( - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/queryinfo_unit_test.cpp: In member function 'void QueryInfo::BlastnGetQueryInfo::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/queryinfo_unit_test.cpp:104:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 104 | auto_ptr qsl1(CTestObjMgr::Instance().CreateSSeqLoc(id1)); - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/queryinfo_unit_test.cpp:105:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 105 | auto_ptr qsl2(CTestObjMgr::Instance().CreateSSeqLoc(id2)); - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/queryinfo_unit_test.cpp: In member function 'void QueryInfo::BlastnGetQueryIndex::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/queryinfo_unit_test.cpp:128:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 128 | auto_ptr qsl1(CTestObjMgr::Instance().CreateSSeqLoc(id1)); - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/queryinfo_unit_test.cpp:129:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 129 | auto_ptr qsl2(CTestObjMgr::Instance().CreateSSeqLoc(id2)); - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rps_unit_test.cpp: In member function 'void RpsTestFixture::NuclSearch(ncbi::objects::ENa_strand)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rps_unit_test.cpp:196:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 196 | auto_ptr query( + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/queryinfo_unit_test.cpp: In member function 'void QueryInfo::BlastnSearchContextInfo::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/queryinfo_unit_test.cpp:152:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 152 | auto_ptr qsl1(CTestObjMgr::Instance().CreateSSeqLoc(id1)); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rps_unit_test.cpp: In member function 'void rps::WholeSequenceMatch::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rps_unit_test.cpp:217:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 217 | auto_ptr query( | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/queryinfo_unit_test.cpp:153:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 153 | auto_ptr qsl2(CTestObjMgr::Instance().CreateSSeqLoc(id2)); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rps_unit_test.cpp: In member function 'void rps::TestCBSFreqsNotFound::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rps_unit_test.cpp:317:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 317 | auto_ptr query(CTestObjMgr::Instance().CreateSSeqLoc(id)); | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/queryinfo_unit_test.cpp: In member function 'void QueryInfo::BlastnSearchContextInfoSingleStrand::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/queryinfo_unit_test.cpp:188:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 188 | auto_ptr qsl1(CTestObjMgr::Instance().CreateSSeqLoc(id1, - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/queryinfo_unit_test.cpp:190:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 190 | auto_ptr qsl2(CTestObjMgr::Instance().CreateSSeqLoc(id2)); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rmblast_traceback_unit_test.cpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, @@ -56279,70 +56253,62 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/blastdb/bdbloader.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blast_test_util.hpp:56, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rps_unit_test.cpp:51: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rps_unit_test.cpp: In member function 'void RpsTestFixture::NuclSearch(ncbi::objects::ENa_strand)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rps_unit_test.cpp:196:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 196 | auto_ptr query( - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rps_unit_test.cpp: In member function 'void rps::WholeSequenceMatch::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rps_unit_test.cpp:217:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 217 | auto_ptr query( - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rps_unit_test.cpp: In member function 'void rps::TestCBSFreqsNotFound::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rps_unit_test.cpp:317:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 317 | auto_ptr query(CTestObjMgr::Instance().CreateSSeqLoc(id)); +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../core -DNCBI_APP_BUILT_AS=rmblast_blasthits_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rmblast_blasthits_unit_test.cpp -o rmblast_blasthits_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie rmblast_blasthits_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o rmblast_blasthits_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f rmblast_blasthits_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f rmblast_blasthits_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/rmblast_blasthits_unit_test +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/remote_blast_unit_test.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ - ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=seqsrc_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/remote_blast_unit_test.cpp:48: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 65 | auto_ptr m_FileStream; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=seqsrc_unit_test -w -j12 --jobserver-auth=7,8 all +make[5]: warning: -j12 forced in submake: resetting jobserver mode. /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 364 | auto_ptr &feat_ci, | ^~~~~~~~ @@ -56355,104 +56321,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/remote_blast_unit_test.cpp: In function 'std::string x_Stringify(TOBJ&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/remote_blast_unit_test.cpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 108 | auto_ptr - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/scoreblk_unit_test.cpp: In member function 'void scoreblk::GetScoreBlockNucl::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/scoreblk_unit_test.cpp:67:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 67 | auto_ptr qsl(CTestObjMgr::Instance().CreateSSeqLoc(id, eNa_strand_both)); - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/scoreblk_unit_test.cpp: In member function 'void scoreblk::GetScoreBlockProtein::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/scoreblk_unit_test.cpp:112:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 112 | auto_ptr qsl(CTestObjMgr::Instance().CreateSSeqLoc(id)); - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/scoreblk_unit_test.cpp: In member function 'void scoreblk::GetScoreBlockPHI::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/scoreblk_unit_test.cpp:163:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 163 | auto_ptr qsl(CTestObjMgr::Instance().CreateSSeqLoc(id)); - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/scoreblk_unit_test.cpp: In member function 'void scoreblk::GetScoreBlockForFullyMaskedProtein::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/scoreblk_unit_test.cpp:240:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 240 | auto_ptr qsl(CTestObjMgr::Instance().CreateSSeqLoc(id, range)); - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/remote_blast_unit_test.cpp: In member function 'void remote_blast::GetSearchStrategy_FullQuery::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/remote_blast_unit_test.cpp:1027:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1027 | auto_ptr sl(CTestObjMgr::Instance().CreateSSeqLoc(*id)); - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/remote_blast_unit_test.cpp: In member function 'void remote_blast::GetSearchStrategy_QueryWithRange::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/remote_blast_unit_test.cpp:1088:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1088 | auto_ptr sl(CTestObjMgr::Instance().CreateSSeqLoc(*id, - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rmblast_traceback_unit_test.cpp: In member function 'void traceback::testRMBlastTraceBack::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rmblast_traceback_unit_test.cpp:184:6: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 184 | auto_ptr qsl( - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rmblast_traceback_unit_test.cpp:187:6: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 187 | auto_ptr ssl( - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=pssmenginefreqratios_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmenginefreqratios_unit_test.cpp -o pssmenginefreqratios_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie pssmenginefreqratios_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o pssmenginefreqratios_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f pssmenginefreqratios_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f pssmenginefreqratios_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/pssmenginefreqratios_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=seqsrc_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=seqsrc_unit_test -w -j12 --jobserver-auth=7,8 all -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../core -DNCBI_APP_BUILT_AS=rmblast_blasthits_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rmblast_blasthits_unit_test.cpp -o rmblast_blasthits_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie rmblast_blasthits_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o rmblast_blasthits_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f rmblast_blasthits_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f rmblast_blasthits_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/rmblast_blasthits_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=setupfactory_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=setupfactory_unit_test -w -j12 --jobserver-auth=7,8 all -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/seqsrc_unit_test.cpp:34: @@ -56786,6 +56654,150 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/scoreblk_unit_test.cpp: In member function 'void scoreblk::GetScoreBlockNucl::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/scoreblk_unit_test.cpp:67:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 67 | auto_ptr qsl(CTestObjMgr::Instance().CreateSSeqLoc(id, eNa_strand_both)); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/scoreblk_unit_test.cpp: In member function 'void scoreblk::GetScoreBlockProtein::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/scoreblk_unit_test.cpp:112:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 112 | auto_ptr qsl(CTestObjMgr::Instance().CreateSSeqLoc(id)); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/scoreblk_unit_test.cpp: In member function 'void scoreblk::GetScoreBlockPHI::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/scoreblk_unit_test.cpp:163:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 163 | auto_ptr qsl(CTestObjMgr::Instance().CreateSSeqLoc(id)); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/scoreblk_unit_test.cpp: In member function 'void scoreblk::GetScoreBlockForFullyMaskedProtein::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/scoreblk_unit_test.cpp:240:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 240 | auto_ptr qsl(CTestObjMgr::Instance().CreateSSeqLoc(id, range)); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 743 | auto_ptr m_ObjectStream; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/queryinfo_unit_test.cpp: In member function 'void QueryInfo::ProteinGetQueryInfo::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/queryinfo_unit_test.cpp:57:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 57 | auto_ptr qsl(CTestObjMgr::Instance().CreateSSeqLoc(id)); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/queryinfo_unit_test.cpp: In member function 'void QueryInfo::EmptyBlastxGetQueryInfo::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/queryinfo_unit_test.cpp:80:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 80 | auto_ptr qsl( + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/queryinfo_unit_test.cpp: In member function 'void QueryInfo::BlastnGetQueryInfo::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/queryinfo_unit_test.cpp:104:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 104 | auto_ptr qsl1(CTestObjMgr::Instance().CreateSSeqLoc(id1)); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/queryinfo_unit_test.cpp:105:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 105 | auto_ptr qsl2(CTestObjMgr::Instance().CreateSSeqLoc(id2)); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/queryinfo_unit_test.cpp: In member function 'void QueryInfo::BlastnGetQueryIndex::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/queryinfo_unit_test.cpp:128:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 128 | auto_ptr qsl1(CTestObjMgr::Instance().CreateSSeqLoc(id1)); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/queryinfo_unit_test.cpp:129:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 129 | auto_ptr qsl2(CTestObjMgr::Instance().CreateSSeqLoc(id2)); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/queryinfo_unit_test.cpp: In member function 'void QueryInfo::BlastnSearchContextInfo::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/queryinfo_unit_test.cpp:152:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 152 | auto_ptr qsl1(CTestObjMgr::Instance().CreateSSeqLoc(id1)); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/queryinfo_unit_test.cpp:153:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 153 | auto_ptr qsl2(CTestObjMgr::Instance().CreateSSeqLoc(id2)); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/queryinfo_unit_test.cpp: In member function 'void QueryInfo::BlastnSearchContextInfoSingleStrand::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/queryinfo_unit_test.cpp:188:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 188 | auto_ptr qsl1(CTestObjMgr::Instance().CreateSSeqLoc(id1, + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/queryinfo_unit_test.cpp:190:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 190 | auto_ptr qsl2(CTestObjMgr::Instance().CreateSSeqLoc(id2)); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/remote_blast_unit_test.cpp:47: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=rmblast_traceback_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rmblast_traceback_unit_test.cpp -o rmblast_traceback_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie rmblast_traceback_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o rmblast_traceback_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f rmblast_traceback_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f rmblast_traceback_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/rmblast_traceback_unit_test +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=setupfactory_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=setupfactory_unit_test -w -j12 --jobserver-auth=7,8 all +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=pssmenginefreqratios_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmenginefreqratios_unit_test.cpp -o pssmenginefreqratios_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie pssmenginefreqratios_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o pssmenginefreqratios_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f pssmenginefreqratios_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f pssmenginefreqratios_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/pssmenginefreqratios_unit_test +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=split_query_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/setupfactory_unit_test.cpp:34: @@ -56897,36 +56909,8 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/search_strategy.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/search_strategy_unit_test.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=split_query_unit_test -w -j12 --jobserver-auth=7,8 all +make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=optionshandle_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/optionshandle_unit_test.cpp -o optionshandle_unit_test.o /usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie optionshandle_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -llmdb -lpthread -lm -lpthread -o optionshandle_unit_test @@ -56934,7 +56918,7 @@ /bin/ln -f optionshandle_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/optionshandle_unit_test make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=split_query_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=stat_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' @@ -56943,13 +56927,9 @@ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=split_query_unit_test -w -j12 --jobserver-auth=7,8 all +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=stat_unit_test -w -j12 --jobserver-auth=7,8 all make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../core -DNCBI_APP_BUILT_AS=pssmcreate_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_unit_test.cpp -o pssmcreate_unit_test.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../core -DNCBI_APP_BUILT_AS=pssmcreate_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssm_test_util.cpp -o pssm_test_util.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../core -DNCBI_APP_BUILT_AS=pssmcreate_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_cdd_unit_test.cpp -o pssmcreate_cdd_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie pssmcreate_unit_test.o pssm_test_util.o pssmcreate_cdd_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/split_query_unit_test.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] @@ -57060,112 +57040,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 743 | auto_ptr m_ObjectStream; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/search_strategy.hpp:178:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 178 | auto_ptr m_Data; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/search_strategy.hpp:181:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 181 | auto_ptr m_OptionsBuilder; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -ypto -lz -lz -lbz2 -lm -lpthread -o pssmcreate_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f pssmcreate_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f pssmcreate_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/pssmcreate_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_seqinfosrc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/seqinfosrc_seqvec.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/seqinfosrc_unit_test.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/search_strategy_unit_test.cpp:43: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=stat_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/search_strategy_unit_test.cpp: In member function 'void search_strategy::ExportStrategy_FullQuery::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/search_strategy_unit_test.cpp:285:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 285 | auto_ptr sl(CTestObjMgr::Instance().CreateSSeqLoc(*id)); - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/search_strategy_unit_test.cpp: In member function 'void search_strategy::ExportStrategy_QueryWithRange::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/search_strategy_unit_test.cpp:347:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 347 | auto_ptr sl(CTestObjMgr::Instance().CreateSSeqLoc(*id, - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/search_strategy_unit_test.cpp: In member function 'void search_strategy::ExportStrategy_DBSoftMask::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/search_strategy_unit_test.cpp:553:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 553 | auto_ptr sl(CTestObjMgr::Instance().CreateSSeqLoc(*id)); - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=stat_unit_test -w -j12 --jobserver-auth=7,8 all -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/seqinfosrc_unit_test.cpp: In member function 'void seqinfosrc::testSeqVecSeqInfoSrc::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/seqinfosrc_unit_test.cpp:70:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 70 | auto_ptr sl(CTestObjMgr::Instance().CreateSSeqLoc(seqid)); - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/seqinfosrc_unit_test.cpp: In member function 'void seqinfosrc::testSeqVecIndexOutOfRange::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/seqinfosrc_unit_test.cpp:91:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 91 | auto_ptr sl(CTestObjMgr::Instance().CreateSSeqLoc(seqid)); - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/stat_unit_test.cpp:34: @@ -57277,10 +57151,10 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/seqsrc_unit_test.cpp:37: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/mockseqsrc1_unit_test.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -57305,32 +57179,10 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/test_objmgr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/seqsrc_mock.cpp:39: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/seqsrc_unit_test.cpp:37: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -57338,9 +57190,8 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/util/random_gen.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/seqsrc_mock.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/seqsrc_mock.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -57356,62 +57207,54 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/seqsrc_unit_test.cpp: In function 'ncbi::blast::TSeqLocVector s_getSequences()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/seqsrc_unit_test.cpp:88:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 88 | auto_ptr sl( - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/setupfactory_unit_test.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../core -DNCBI_APP_BUILT_AS=pssmcreate_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_unit_test.cpp -o pssmcreate_unit_test.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../core -DNCBI_APP_BUILT_AS=pssmcreate_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssm_test_util.cpp -o pssm_test_util.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../core -DNCBI_APP_BUILT_AS=pssmcreate_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_cdd_unit_test.cpp -o pssmcreate_cdd_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie pssmcreate_unit_test.o pssm_test_util.o pssmcreate_cdd_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/remote_blast_unit_test.cpp:48: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 65 | auto_ptr m_FileStream; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/remote_blast_unit_test.cpp: In function 'std::string x_Stringify(TOBJ&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/remote_blast_unit_test.cpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 108 | auto_ptr | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=queryinfo_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/queryinfo_unit_test.cpp -o queryinfo_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie queryinfo_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o queryinfo_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f queryinfo_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f queryinfo_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/queryinfo_unit_test +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=querydata_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/querydata_unit_test.cpp -o querydata_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie querydata_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o querydata_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f querydata_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f querydata_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/querydata_unit_test make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/seqsrc_mock.cpp: In member function 'void CRandomlyFailMockBlastSeqSrc::x_PopulateBLAST_SequenceBlk(BlastSeqSrcGetSeqArg*)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/seqsrc_mock.cpp:149:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 149 | auto_ptr sl - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=subj_ranges_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/mockseqsrc1_unit_test.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/mockseqsrc2_unit_test.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -57424,6 +57267,12 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ @@ -57436,6 +57285,16 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=subj_ranges_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' @@ -57444,11 +57303,41 @@ make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=subj_ranges_unit_test -w -j12 --jobserver-auth=7,8 all make[5]: warning: -j12 forced in submake: resetting jobserver mode. +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/remote_blast_unit_test.cpp: In member function 'void remote_blast::GetSearchStrategy_FullQuery::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/remote_blast_unit_test.cpp:1027:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1027 | auto_ptr sl(CTestObjMgr::Instance().CreateSSeqLoc(*id)); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/remote_blast_unit_test.cpp: In member function 'void remote_blast::GetSearchStrategy_QueryWithRange::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/remote_blast_unit_test.cpp:1088:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1088 | auto_ptr sl(CTestObjMgr::Instance().CreateSSeqLoc(*id, + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/seqsrc_unit_test.cpp: In function 'ncbi::blast::TSeqLocVector s_getSequences()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/seqsrc_unit_test.cpp:88:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 88 | auto_ptr sl( + | ^~~~~~~~ +ypto -lz -lz -lbz2 -lm -lpthread -o pssmcreate_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f pssmcreate_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f pssmcreate_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/pssmcreate_unit_test +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=traceback_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/test_objmgr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/split_query_unit_test.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_seqinfosrc.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/seqinfosrc_seqvec.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/seqinfosrc_unit_test.cpp:37: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -57473,16 +57362,12 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=rmblast_traceback_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rmblast_traceback_unit_test.cpp -o rmblast_traceback_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie rmblast_traceback_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o rmblast_traceback_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f rmblast_traceback_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f rmblast_traceback_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/rmblast_traceback_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/mockseqsrc2_unit_test.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/search_strategy.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/search_strategy_unit_test.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -57495,6 +57380,8 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ @@ -57507,12 +57394,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=traceback_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. @@ -57741,47 +57622,132 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/setupfactory_unit_test.cpp: In member function 'void setup_factory::CreateScoreBlockBadReward::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/setupfactory_unit_test.cpp:72:6: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 72 | auto_ptr opts_memento (opts.CreateSnapshot()); - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/seqinfosrc_unit_test.cpp: In member function 'void seqinfosrc::testSeqVecSeqInfoSrc::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/seqinfosrc_unit_test.cpp:70:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 70 | auto_ptr sl(CTestObjMgr::Instance().CreateSSeqLoc(seqid)); + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/setupfactory_unit_test.cpp: In member function 'void setup_factory::CreateScoreBlockMaskedSequence::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/setupfactory_unit_test.cpp:88:6: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 88 | auto_ptr ssloc( - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/seqinfosrc_unit_test.cpp: In member function 'void seqinfosrc::testSeqVecIndexOutOfRange::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/seqinfosrc_unit_test.cpp:91:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 91 | auto_ptr sl(CTestObjMgr::Instance().CreateSSeqLoc(seqid)); + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/setupfactory_unit_test.cpp:101:6: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 101 | auto_ptr opts_memento (opts.CreateSnapshot()); - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 743 | auto_ptr m_ObjectStream; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/setupfactory_unit_test.cpp: In member function 'void setup_factory::CreateScoreBlockOK::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/setupfactory_unit_test.cpp:122:6: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 122 | auto_ptr ssloc( - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/search_strategy.hpp:178:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 178 | auto_ptr m_Data; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/setupfactory_unit_test.cpp:135:6: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 135 | auto_ptr opts_memento (opts.CreateSnapshot()); - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/search_strategy.hpp:181:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 181 | auto_ptr m_OptionsBuilder; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/simple/simple_om.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/split_query_unit_test.cpp:46: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/test_objmgr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/seqsrc_mock.cpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/util/random_gen.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/seqsrc_mock.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/seqsrc_mock.cpp:35: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/search_strategy_unit_test.cpp:43: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/search_strategy_unit_test.cpp: In member function 'void search_strategy::ExportStrategy_FullQuery::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/search_strategy_unit_test.cpp:285:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 285 | auto_ptr sl(CTestObjMgr::Instance().CreateSSeqLoc(*id)); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/search_strategy_unit_test.cpp: In member function 'void search_strategy::ExportStrategy_QueryWithRange::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/search_strategy_unit_test.cpp:347:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 347 | auto_ptr sl(CTestObjMgr::Instance().CreateSSeqLoc(*id, + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/search_strategy_unit_test.cpp: In member function 'void search_strategy::ExportStrategy_DBSoftMask::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/search_strategy_unit_test.cpp:553:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 553 | auto_ptr sl(CTestObjMgr::Instance().CreateSSeqLoc(*id)); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/seqsrc_mock.cpp: In member function 'void CRandomlyFailMockBlastSeqSrc::x_PopulateBLAST_SequenceBlk(BlastSeqSrcGetSeqArg*)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/seqsrc_mock.cpp:149:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 149 | auto_ptr sl + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/test_objmgr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/split_query_unit_test.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=rps_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rps_unit_test.cpp -o rps_unit_test.o /usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie rps_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o rps_unit_test @@ -57798,11 +57764,29 @@ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=stat_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/stat_unit_test.cpp -o stat_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie stat_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -llmdb -lpthread -lm -lpthread -o stat_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f stat_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f stat_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/stat_unit_test +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=tracebacksearch_unit_test -w -j12 --jobserver-auth=7,8 all +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=uniform_search_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=uniform_search_unit_test -w -j12 --jobserver-auth=7,8 all make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/tracebacksearch_unit_test.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/uniform_search_unit_test.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -57897,59 +57881,23 @@ 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^~~~~~~~~~~~~~~~~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=stat_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/stat_unit_test.cpp -o stat_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie stat_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -llmdb -lpthread -lm -lpthread -o stat_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f stat_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f stat_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/stat_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=uniform_search_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=scoreblk_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/scoreblk_unit_test.cpp -o scoreblk_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie scoreblk_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o scoreblk_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f scoreblk_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f scoreblk_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/scoreblk_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=version_reference_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=uniform_search_unit_test -w -j12 --jobserver-auth=7,8 all -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=version_reference_unit_test -w -j12 --jobserver-auth=7,8 all -make[5]: warning: -j12 forced in submake: resetting jobserver mode. + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/uniform_search_unit_test.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/tracebacksearch_unit_test.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -58058,6 +58006,106 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/setupfactory_unit_test.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/traceback_unit_test.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/simple/simple_om.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/split_query_unit_test.cpp:46: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/setupfactory_unit_test.cpp: In member function 'void setup_factory::CreateScoreBlockBadReward::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/setupfactory_unit_test.cpp:72:6: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 72 | auto_ptr opts_memento (opts.CreateSnapshot()); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/setupfactory_unit_test.cpp: In member function 'void setup_factory::CreateScoreBlockMaskedSequence::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/setupfactory_unit_test.cpp:88:6: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 88 | auto_ptr ssloc( + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/setupfactory_unit_test.cpp:101:6: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 101 | auto_ptr opts_memento (opts.CreateSnapshot()); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/setupfactory_unit_test.cpp: In member function 'void setup_factory::CreateScoreBlockOK::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/setupfactory_unit_test.cpp:122:6: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 122 | auto_ptr ssloc( + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/setupfactory_unit_test.cpp:135:6: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 135 | auto_ptr opts_memento (opts.CreateSnapshot()); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=queryinfo_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/queryinfo_unit_test.cpp -o queryinfo_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie queryinfo_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o queryinfo_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f queryinfo_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f queryinfo_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/queryinfo_unit_test +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=version_reference_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=version_reference_unit_test -w -j12 --jobserver-auth=7,8 all +make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/version_reference_unit_test.cpp:34: @@ -58169,11 +58217,32 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/traceback_unit_test.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=seqinfosrc_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/seqinfosrc_unit_test.cpp -o seqinfosrc_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie seqinfosrc_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o seqinfosrc_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f seqinfosrc_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f seqinfosrc_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/seqinfosrc_unit_test +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=scoreblk_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/scoreblk_unit_test.cpp -o scoreblk_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie scoreblk_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o scoreblk_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f scoreblk_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f scoreblk_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/scoreblk_unit_test make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' cd app/blastdb/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=convert2blastmask LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null @@ -58186,17 +58255,20 @@ make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb TMPL=convert2blastmask -w -j12 --jobserver-auth=7,8 all -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=querydata_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/querydata_unit_test.cpp -o querydata_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie querydata_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o querydata_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f querydata_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f querydata_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/querydata_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -cd app/segmasker/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=segmasker LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/segmasker' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/traceback_unit_test.cpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/convert2blastmask.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] @@ -58307,6 +58379,16 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=seqinfosrc_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/seqinfosrc_unit_test.cpp -o seqinfosrc_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie seqinfosrc_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o seqinfosrc_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f seqinfosrc_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f seqinfosrc_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/seqinfosrc_unit_test +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +cd app/segmasker/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=segmasker LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/segmasker' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/segmasker' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/segmasker' @@ -58315,19 +58397,6 @@ make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/segmasker' /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/segmasker TMPL=segmasker -w -j12 --jobserver-auth=7,8 all make[5]: warning: -j12 forced in submake: resetting jobserver mode. -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/traceback_unit_test.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/segmasker/segmasker.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] @@ -58439,23 +58508,165 @@ 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=setupfactory_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/setupfactory_unit_test.cpp -o setupfactory_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie setupfactory_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o setupfactory_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f setupfactory_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f setupfactory_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/setupfactory_unit_test +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=seqsrc_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/seqsrc_unit_test.cpp -o seqsrc_unit_test.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=seqsrc_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/seqsrc_mock.cpp -o seqsrc_mock.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=seqsrc_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/mockseqsrc1_unit_test.cpp -o mockseqsrc1_unit_test.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=seqsrc_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/mockseqsrc2_unit_test.cpp -o mockseqsrc2_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie seqsrc_unit_test.o seqsrc_mock.o mockseqsrc1_unit_test.o mockseqsrc2_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/traceback_stage.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/tracebacksearch_unit_test.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/uniform_search_unit_test.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +blastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o seqsrc_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f seqsrc_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f seqsrc_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/seqsrc_unit_test make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/traceback_unit_test.cpp: In member function 'void traceback::testBLASTNTraceBack::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/traceback_unit_test.cpp:211:6: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 211 | auto_ptr qsl( + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/traceback_unit_test.cpp:214:6: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 214 | auto_ptr ssl( + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' cd algo/blast/format/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=xblastformat UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/format' make[4]: warning: -j12 forced in submake: resetting jobserver mode. +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/traceback_unit_test.cpp: In member function 'void traceback::testBLASTNTraceBackLargeXDrop::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/traceback_unit_test.cpp:341:6: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 341 | auto_ptr qsl( + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/traceback_unit_test.cpp:344:6: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 344 | auto_ptr ssl( + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/traceback_unit_test.cpp: In member function 'void traceback::testBLASTPTraceBack::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/traceback_unit_test.cpp:479:6: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 479 | auto_ptr qsl( + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/traceback_unit_test.cpp:481:6: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 481 | auto_ptr ssl( + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/format' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/format' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/format' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/traceback_unit_test.cpp: In member function 'void traceback::testTBLASTNTraceBack::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/traceback_unit_test.cpp:603:6: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 603 | auto_ptr qsl( + | ^~~~~~~~ make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/format' +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/traceback_unit_test.cpp:605:6: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 605 | auto_ptr ssl( + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format TMPL=xblastformat -w -j12 --jobserver-auth=7,8 all +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/traceback_unit_test.cpp: In member function 'void traceback::testFilterBlastResults_QueryCov::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/traceback_unit_test.cpp:849:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 849 | auto_ptr qsl( + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/traceback_unit_test.cpp:851:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 851 | auto_ptr ssl( + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ make[5]: warning: -j12 forced in submake: resetting jobserver mode. +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/traceback_unit_test.cpp: In member function 'void traceback::testFilterBlastResults_MaxHsps::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/traceback_unit_test.cpp:952:6: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 952 | auto_ptr qsl( + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/traceback_unit_test.cpp:955:6: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 955 | auto_ptr ssl( + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/format' /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLASTFORMAT -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastfmtutil.cpp -o blastfmtutil.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNCBI_MODULE=BLASTFORMAT -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastxml_format.cpp -o blastxml_format.o @@ -58466,8 +58677,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:49, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blast_format.cpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastxml_format.cpp:45: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -58598,7 +58808,8 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastxml_format.cpp:45: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:49, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/vecscreen_run.cpp:37: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -58725,33 +58936,17 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/traceback_unit_test.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=subj_ranges_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/subj_ranges_unit_test.cpp -o subj_ranges_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie subj_ranges_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o subj_ranges_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f subj_ranges_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f subj_ranges_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/subj_ranges_unit_test +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:49, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/vecscreen_run.cpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastxml2_format.cpp:46: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -58842,6 +59037,7 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^~~~~~~~~~~~~~~~~~~~~~~ +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:77: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^ @@ -58860,29 +59056,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:76: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastxml2_format.cpp:46: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:49, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blast_format.cpp:37: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -59009,37 +59188,42 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/traceback_stage.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/tracebacksearch_unit_test.cpp:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:76: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/blastdb/bdbloader.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blast_test_util.hpp:56, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/tracebacksearch_unit_test.cpp:54: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_search.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/uniform_search_unit_test.cpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 743 | auto_ptr m_ObjectStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, @@ -59173,139 +59357,93 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/traceback_unit_test.cpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/tracebacksearch_unit_test.cpp: In member function 'ncbi::blast::CSearchResultSet CTracebackSearchTestFixture::x_Traceback(ncbi::CSeqDBGiList*)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/tracebacksearch_unit_test.cpp:269:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 269 | auto_ptr sl(CTestObjMgr::Instance().CreateSSeqLoc(query)); | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/uniform_search_unit_test.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/tracebacksearch_unit_test.cpp: In member function 'void tracebacksearch::SimpleTraceback::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/tracebacksearch_unit_test.cpp:331:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 331 | auto_ptr sl(CTestObjMgr::Instance().CreateSSeqLoc(query)); + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/tracebacksearch_unit_test.cpp: In member function 'void tracebacksearch::TracebackWithPssm_AndWarning::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/tracebacksearch_unit_test.cpp:375:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 375 | auto_ptr sl(CTestObjMgr::Instance().CreateSSeqLoc(query)); | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=seqsrc_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/seqsrc_unit_test.cpp -o seqsrc_unit_test.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=seqsrc_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/seqsrc_mock.cpp -o seqsrc_mock.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=seqsrc_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/mockseqsrc1_unit_test.cpp -o mockseqsrc1_unit_test.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=seqsrc_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/mockseqsrc2_unit_test.cpp -o mockseqsrc2_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie seqsrc_unit_test.o seqsrc_mock.o mockseqsrc1_unit_test.o mockseqsrc2_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/blastdb/bdbloader.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blast_test_util.hpp:56, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/tracebacksearch_unit_test.cpp:54: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/uniform_search_unit_test.cpp:45: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/tracebacksearch_unit_test.cpp: In member function 'ncbi::blast::CSearchResultSet CTracebackSearchTestFixture::x_Traceback(ncbi::CSeqDBGiList*)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/tracebacksearch_unit_test.cpp:269:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 269 | auto_ptr sl(CTestObjMgr::Instance().CreateSSeqLoc(query)); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/uniform_search_unit_test.cpp: In function 'ncbi::blast::CSearchResultSet RunMultipleProteinSearch(ncbi::blast::ISearchFactory&, const std::string&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/uniform_search_unit_test.cpp:87:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 87 | auto_ptr sl0(CTestObjMgr::Instance().CreateSSeqLoc(query_id0)); | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/tracebacksearch_unit_test.cpp: In member function 'void tracebacksearch::SimpleTraceback::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/tracebacksearch_unit_test.cpp:331:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 331 | auto_ptr sl(CTestObjMgr::Instance().CreateSSeqLoc(query)); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/uniform_search_unit_test.cpp:90:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 90 | auto_ptr sl1(CTestObjMgr::Instance().CreateSSeqLoc(query_id1)); | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/tracebacksearch_unit_test.cpp: In member function 'void tracebacksearch::TracebackWithPssm_AndWarning::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/tracebacksearch_unit_test.cpp:375:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 375 | auto_ptr sl(CTestObjMgr::Instance().CreateSSeqLoc(query)); +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastxml_format.cpp:34: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:45: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=search_strategy_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/search_strategy_unit_test.cpp -o search_strategy_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie search_strategy_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o search_strategy_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f search_strategy_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f search_strategy_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/search_strategy_unit_test +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=setupfactory_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/setupfactory_unit_test.cpp -o setupfactory_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie setupfactory_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o setupfactory_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f setupfactory_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f setupfactory_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/setupfactory_unit_test make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_search.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/uniform_search_unit_test.cpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 743 | auto_ptr m_ObjectStream; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -blastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o seqsrc_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f seqsrc_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f seqsrc_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/seqsrc_unit_test +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=version_reference_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/version_reference_unit_test.cpp -o version_reference_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie version_reference_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -llmdb -lpthread -lm -lpthread -o version_reference_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f version_reference_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f version_reference_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/version_reference_unit_test make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/seqmasks_io/mask_fasta_reader.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/segmasker/segmasker.cpp:44: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastxml2_format.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:45: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/seqmasks_io/mask_fasta_reader.hpp:94:32: warning: 'ncbi::objects::CFastaReader::fAllSeqIds' is deprecated: This flag is no longer used in CFastaReader. [-Wdeprecated-declarations] - 94 | objects::CFastaReader::fAllSeqIds | - | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:92:9: note: declared here - 92 | fAllSeqIds NCBI_STD_DEPRECATED("This flag is no longer used in CFastaReader.") = 1<< 6, ///< Read Seq-ids past the first ^A (see note) - | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/seqmasks_io/mask_fasta_reader.hpp:94:32: warning: 'ncbi::objects::CFastaReader::fAllSeqIds' is deprecated: This flag is no longer used in CFastaReader. [-Wdeprecated-declarations] - 94 | objects::CFastaReader::fAllSeqIds | - | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:92:9: note: declared here - 92 | fAllSeqIds NCBI_STD_DEPRECATED("This flag is no longer used in CFastaReader.") = 1<< 6, ///< Read Seq-ids past the first ^A (see note) - | ^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastxml_format.cpp:34: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_async_format.hpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ @@ -59319,95 +59457,24 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/traceback_unit_test.cpp: In member function 'void traceback::testBLASTNTraceBack::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/traceback_unit_test.cpp:211:6: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 211 | auto_ptr qsl( - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/traceback_unit_test.cpp:214:6: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 214 | auto_ptr ssl( - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/traceback_unit_test.cpp: In member function 'void traceback::testBLASTNTraceBackLargeXDrop::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/traceback_unit_test.cpp:341:6: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 341 | auto_ptr qsl( - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/traceback_unit_test.cpp:344:6: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 344 | auto_ptr ssl( - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/traceback_unit_test.cpp: In member function 'void traceback::testBLASTPTraceBack::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/traceback_unit_test.cpp:479:6: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 479 | auto_ptr qsl( - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/traceback_unit_test.cpp:481:6: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 481 | auto_ptr ssl( - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/traceback_unit_test.cpp: In member function 'void traceback::testTBLASTNTraceBack::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/traceback_unit_test.cpp:603:6: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 603 | auto_ptr qsl( - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/traceback_unit_test.cpp:605:6: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 605 | auto_ptr ssl( - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/traceback_unit_test.cpp: In member function 'void traceback::testFilterBlastResults_QueryCov::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/traceback_unit_test.cpp:849:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 849 | auto_ptr qsl( - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/traceback_unit_test.cpp:851:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 851 | auto_ptr ssl( - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/traceback_unit_test.cpp: In member function 'void traceback::testFilterBlastResults_MaxHsps::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/traceback_unit_test.cpp:952:6: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 952 | auto_ptr qsl( - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/traceback_unit_test.cpp:955:6: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 955 | auto_ptr ssl( - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastxml2_format.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/seqmasks_io/mask_fasta_reader.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/segmasker/segmasker.cpp:44: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:45: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -59431,29 +59498,40 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/blastdb/bdbloader.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blast_test_util.hpp:56, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/uniform_search_unit_test.cpp:45: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastxml_format.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/uniform_search_unit_test.cpp: In function 'ncbi::blast::CSearchResultSet RunMultipleProteinSearch(ncbi::blast::ISearchFactory&, const std::string&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/uniform_search_unit_test.cpp:87:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 87 | auto_ptr sl0(CTestObjMgr::Instance().CreateSSeqLoc(query_id0)); - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/uniform_search_unit_test.cpp:90:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 90 | auto_ptr sl1(CTestObjMgr::Instance().CreateSSeqLoc(query_id1)); - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/seqmasks_io/mask_fasta_reader.hpp:94:32: warning: 'ncbi::objects::CFastaReader::fAllSeqIds' is deprecated: This flag is no longer used in CFastaReader. [-Wdeprecated-declarations] + 94 | objects::CFastaReader::fAllSeqIds | + | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:92:9: note: declared here + 92 | fAllSeqIds NCBI_STD_DEPRECATED("This flag is no longer used in CFastaReader.") = 1<< 6, ///< Read Seq-ids past the first ^A (see note) + | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/seqmasks_io/mask_fasta_reader.hpp:94:32: warning: 'ncbi::objects::CFastaReader::fAllSeqIds' is deprecated: This flag is no longer used in CFastaReader. [-Wdeprecated-declarations] + 94 | objects::CFastaReader::fAllSeqIds | + | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:92:9: note: declared here + 92 | fAllSeqIds NCBI_STD_DEPRECATED("This flag is no longer used in CFastaReader.") = 1<< 6, ///< Read Seq-ids past the first ^A (see note) + | ^~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/../blast/blast_app_util.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/convert2blastmask.cpp:39: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] @@ -59462,20 +59540,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_async_format.hpp:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:45: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/segmasker/segmasker.cpp:52: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; @@ -59486,19 +59550,13 @@ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/data4xmlformat.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/data4xmlformat.cpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:40: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Seq_annot_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Seq_annot.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/data4xmlformat.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:39: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -59516,14 +59574,16 @@ | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/../blast/blast_app_util.hpp:40: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/sam_formatter.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/sam.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/sam.cpp:37: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbictype.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistre.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/sam_formatter.hpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -59539,6 +59599,18 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, @@ -59564,16 +59636,17 @@ | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/sam_formatter.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/sam.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/sam.cpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastfmtutil.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbictype.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistre.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/sam_formatter.hpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:36: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -59589,23 +59662,16 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 65 | auto_ptr m_FileStream; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:40: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/../blast/blast_app_util.hpp:40: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:39: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -59621,21 +59687,34 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 156 | auto_ptr m_DecompressIStream; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/build_archive.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/build_archive.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbitime.hpp:65, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_system.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/build_archive.cpp:35: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 157 | auto_ptr m_CompressOStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 875 | auto_ptr m_DecompressIStream; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -59665,40 +59744,9 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=subj_ranges_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/subj_ranges_unit_test.cpp -o subj_ranges_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie subj_ranges_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o subj_ranges_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f subj_ranges_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f subj_ranges_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/subj_ranges_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:39: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/data4xmlformat.hpp:44: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:48, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastxml_format.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastxml_format.cpp:43: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 108 | auto_ptr m_memGi2GeneFile; | ^~~~~~~~ @@ -59723,27 +59771,29 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1554 | static auto_ptr m_GeneInfoReader; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/../blast/blast_app_util.hpp:45: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 743 | auto_ptr m_ObjectStream; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/data4xml2format.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/data4xml2format.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Seq_annot_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Seq_annot.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/data4xml2format.cpp:34: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastxml2_format.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:49: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1554 | static auto_ptr m_GeneInfoReader; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -59759,46 +59809,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/sam.cpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 108 | auto_ptr m_memGi2GeneFile; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 111 | auto_ptr m_memGene2OffsetFile; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 114 | auto_ptr m_memGi2OffsetFile; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 117 | auto_ptr m_memGene2GiFile; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1554 | static auto_ptr m_GeneInfoReader; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 654 | auto_ptr m_GeneInfoReader; | ^~~~~~~~ @@ -59808,19 +59818,13 @@ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/data4xml2format.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/data4xml2format.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:40: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Seq_annot_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Seq_annot.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/data4xml2format.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:39: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -59836,29 +59840,22 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/data4xmlformat.hpp: In member function 'virtual std::string ncbi::CCmdLineBlastXMLReportData::GetFilterString() const': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/data4xmlformat.hpp:155:38: warning: 'char* ncbi::blast::CBlastOptions::GetFilterString() const' is deprecated [-Wdeprecated-declarations] - 155 | m_Options.GetFilterString(); /* NCBI_FAKE_WARNING */ - | ~~~~~~~~~~~~~~~~~~~~~~~~~^~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/data4xmlformat.hpp:42: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:178:27: note: declared here - 178 | NCBI_DEPRECATED char* GetFilterString() const; - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastfmtutil.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/data4xmlformat.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/data4xmlformat.cpp:37: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbictype.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistre.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Seq_annot_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Seq_annot.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/data4xmlformat.cpp:35: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -59874,70 +59871,54 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/../blast/blast_app_util.hpp:50: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 108 | auto_ptr m_memGi2GeneFile; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 111 | auto_ptr m_memGene2OffsetFile; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 65 | auto_ptr m_FileStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 114 | auto_ptr m_memGi2OffsetFile; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 449 | auto_ptr m_ConfigFile; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 117 | auto_ptr m_memGene2GiFile; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:450:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 450 | auto_ptr m_Reg; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/build_archive.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/build_archive.cpp:37: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastxml2_format.cpp:37: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbitime.hpp:65, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_system.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/build_archive.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastxml_format.cpp: In function 'void ncbi::s_SeqAlignSetToXMLHits(std::__cxx11::list >&, const objects::CSeq_align_set&, objects::CScope*, const CBlastFormattingMatrix*, const TMaskedQueryRegions*, bool, int, int, CNcbiOstream*)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastxml_format.cpp:501:17: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 501 | auto_ptr xml_one_hit_os (new CObjectOStreamXml (one_hit_os,false)); + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1554 | static auto_ptr m_GeneInfoReader; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastxml_format.cpp:501:100: warning: 'ncbi::CObjectOStreamXml::CObjectOStreamXml(ncbi::CNcbiOstream&, bool)' is deprecated [-Wdeprecated-declarations] + 501 | auto_ptr xml_one_hit_os (new CObjectOStreamXml (one_hit_os,false)); + | ^ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiexpt.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/tempstr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/objostrxml.hpp:66:26: note: declared here + 66 | NCBI_DEPRECATED_CTOR(CObjectOStreamXml(CNcbiOstream& out, bool deleteOut)); + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbimisc.hpp:1192:38: note: in definition of macro 'NCBI_DEPRECATED_CTOR' + 1192 | # define NCBI_DEPRECATED_CTOR(decl) decl NCBI_DEPRECATED + | ^~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ @@ -59950,67 +59931,49 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 654 | auto_ptr m_GeneInfoReader; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 156 | auto_ptr m_DecompressIStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_async_format.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 157 | auto_ptr m_CompressOStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastxml_format.cpp: In function 'void ncbi::BlastXML_FormatReport(objects::CBlastOutput&, const IBlastXMLReportData*, CNcbiOstream*, SBlastXMLIncremental*)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastxml_format.cpp:719:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 719 | auto_ptr< CBlastFormattingMatrix > matrix(data->GetMatrix()); | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastxml_format.cpp:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastxml_format.cpp: In function 'bool ncbi::s_SerializeAndSplitBy(const CSerialObject&, const char*, std::string&, std::string&, bool, bool)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastxml_format.cpp:785:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 785 | auto_ptr xml_one_iter_os(new CObjectOStreamXml (one_iter_ss_os,false)); + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastxml_format.cpp:785:96: warning: 'ncbi::CObjectOStreamXml::CObjectOStreamXml(ncbi::CNcbiOstream&, bool)' is deprecated [-Wdeprecated-declarations] + 785 | auto_ptr xml_one_iter_os(new CObjectOStreamXml (one_iter_ss_os,false)); + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/objostrxml.hpp:66:26: note: declared here + 66 | NCBI_DEPRECATED_CTOR(CObjectOStreamXml(CNcbiOstream& out, bool deleteOut)); + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbimisc.hpp:1192:38: note: in definition of macro 'NCBI_DEPRECATED_CTOR' + 1192 | # define NCBI_DEPRECATED_CTOR(decl) decl NCBI_DEPRECATED + | ^~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 875 | auto_ptr m_DecompressIStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=version_reference_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/version_reference_unit_test.cpp -o version_reference_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie version_reference_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -llmdb -lpthread -lm -lpthread -o version_reference_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f version_reference_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f version_reference_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/version_reference_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/tabular.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:47: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/sam.cpp:39: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 108 | auto_ptr m_memGi2GeneFile; | ^~~~~~~~ @@ -60035,6 +59998,12 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1554 | static auto_ptr m_GeneInfoReader; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:39: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] @@ -60067,15 +60036,16 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1554 | static auto_ptr m_GeneInfoReader; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/../blast/blast_app_util.hpp:45: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 743 | auto_ptr m_ObjectStream; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:48, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastxml2_format.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastxml2_format.cpp:44: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/tabular.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:47: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 108 | auto_ptr m_memGi2GeneFile; | ^~~~~~~~ @@ -60100,27 +60070,61 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/convert2blastmask.cpp: In member function 'virtual void CConvert2BlastMaskApplication::Init()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/convert2blastmask.cpp:148:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 148 | auto_ptr arg_desc(new CArgDescriptions); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1554 | static auto_ptr m_GeneInfoReader; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/convert2blastmask.cpp: In member function 'virtual int CConvert2BlastMaskApplication::Run()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/convert2blastmask.cpp:223:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 223 | auto_ptr reader(x_GetReader()); - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 654 | auto_ptr m_GeneInfoReader; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/convert2blastmask.cpp:224:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 224 | auto_ptr writer(x_GetWriter()); +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_async_format.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/tabular.hpp:41, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:47: @@ -60148,13 +60152,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:49: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1554 | static auto_ptr m_GeneInfoReader; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 1554 | static auto_ptr m_GeneInfoReader; | ^~~~~~~~ @@ -60162,7 +60159,7 @@ 65 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:41: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:48: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ @@ -60175,29 +60172,28 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 654 | auto_ptr m_GeneInfoReader; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 743 | auto_ptr m_ObjectStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:48: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/build_archive.cpp:43: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/search_strategy.hpp:178:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 178 | auto_ptr m_Data; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 654 | auto_ptr m_GeneInfoReader; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/search_strategy.hpp:181:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 181 | auto_ptr m_OptionsBuilder; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/data4xml2format.hpp:44: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:48, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastxml2_format.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastxml2_format.cpp:44: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 108 | auto_ptr m_memGi2GeneFile; | ^~~~~~~~ @@ -60222,26 +60218,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:48: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 449 | auto_ptr m_ConfigFile; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:450:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 450 | auto_ptr m_Reg; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastfmtutil.cpp: In static member function 'static void ncbi::CBlastFormatUtil::PrintAsciiPssm(const ncbi::objects::CPssmWithParameters&, ncbi::CConstRef, ncbi::CNcbiOstream&)': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastfmtutil.cpp:205:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 205 | auto_ptr< TNcbiMatrixInt > pssm @@ -60255,53 +60231,48 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:49: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 1554 | static auto_ptr m_GeneInfoReader; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 654 | auto_ptr m_GeneInfoReader; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/data4xml2format.hpp:44: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 108 | auto_ptr m_memGi2GeneFile; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_async_format.hpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 111 | auto_ptr m_memGene2OffsetFile; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 743 | auto_ptr m_ObjectStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 114 | auto_ptr m_memGi2OffsetFile; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/build_archive.cpp:43: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/search_strategy.hpp:178:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 178 | auto_ptr m_Data; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 117 | auto_ptr m_memGene2GiFile; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/search_strategy.hpp:181:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 181 | auto_ptr m_OptionsBuilder; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1554 | static auto_ptr m_GeneInfoReader; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 654 | auto_ptr m_GeneInfoReader; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -60318,82 +60289,101 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 654 | auto_ptr m_GeneInfoReader; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:48: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/data4xml2format.hpp: In member function 'virtual std::string ncbi::CCmdLineBlastXML2ReportData::GetFilterString() const': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/data4xml2format.hpp:140:39: warning: 'char* ncbi::blast::CBlastOptions::GetFilterString() const' is deprecated [-Wdeprecated-declarations] - 140 | m_Options->GetFilterString(); /* NCBI_FAKE_WARNING */ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/data4xml2format.hpp:42: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:178:27: note: declared here - 178 | NCBI_DEPRECATED char* GetFilterString() const; - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/data4xmlformat.hpp:44: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 108 | auto_ptr m_memGi2GeneFile; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 111 | auto_ptr m_memGene2OffsetFile; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 449 | auto_ptr m_ConfigFile; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 114 | auto_ptr m_memGi2OffsetFile; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:450:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 450 | auto_ptr m_Reg; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 117 | auto_ptr m_memGene2GiFile; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/tabular.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:47: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 108 | auto_ptr m_memGi2GeneFile; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 654 | auto_ptr m_GeneInfoReader; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 111 | auto_ptr m_memGene2OffsetFile; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1554 | static auto_ptr m_GeneInfoReader; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 114 | auto_ptr m_memGi2OffsetFile; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 654 | auto_ptr m_GeneInfoReader; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 117 | auto_ptr m_memGene2GiFile; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1554 | static auto_ptr m_GeneInfoReader; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/data4xml2format.hpp: In member function 'virtual std::string ncbi::CCmdLineBlastXML2ReportData::GetFilterString() const': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/data4xml2format.hpp:140:39: warning: 'char* ncbi::blast::CBlastOptions::GetFilterString() const' is deprecated [-Wdeprecated-declarations] + 140 | m_Options->GetFilterString(); /* NCBI_FAKE_WARNING */ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/data4xml2format.hpp:42: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:178:27: note: declared here + 178 | NCBI_DEPRECATED char* GetFilterString() const; + | ^~~~~~~~~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=search_strategy_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/search_strategy_unit_test.cpp -o search_strategy_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie search_strategy_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o search_strategy_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f search_strategy_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f search_strategy_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/search_strategy_unit_test +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 654 | auto_ptr m_GeneInfoReader; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:48, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastxml_format.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastxml_format.cpp:43: +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/../blast/blast_app_util.hpp:50: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 108 | auto_ptr m_memGi2GeneFile; | ^~~~~~~~ @@ -60418,26 +60408,30 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:49: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1554 | static auto_ptr m_GeneInfoReader; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:48: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 654 | auto_ptr m_GeneInfoReader; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_async_format.hpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 449 | auto_ptr m_ConfigFile; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 654 | auto_ptr m_GeneInfoReader; - | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:450:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 450 | auto_ptr m_Reg; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1554 | static auto_ptr m_GeneInfoReader; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 449 | auto_ptr m_ConfigFile; | ^~~~~~~~ @@ -60450,141 +60444,105 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=remote_blast_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/remote_blast_unit_test.cpp -o remote_blast_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie remote_blast_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o remote_blast_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f remote_blast_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f remote_blast_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/remote_blast_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastxml_format.cpp: In function 'void ncbi::s_SeqAlignSetToXMLHits(std::__cxx11::list >&, const objects::CSeq_align_set&, objects::CScope*, const CBlastFormattingMatrix*, const TMaskedQueryRegions*, bool, int, int, CNcbiOstream*)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastxml_format.cpp:501:17: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 501 | auto_ptr xml_one_hit_os (new CObjectOStreamXml (one_hit_os,false)); - | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastxml_format.cpp:501:100: warning: 'ncbi::CObjectOStreamXml::CObjectOStreamXml(ncbi::CNcbiOstream&, bool)' is deprecated [-Wdeprecated-declarations] - 501 | auto_ptr xml_one_hit_os (new CObjectOStreamXml (one_hit_os,false)); - | ^ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiexpt.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/tempstr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/objostrxml.hpp:66:26: note: declared here - 66 | NCBI_DEPRECATED_CTOR(CObjectOStreamXml(CNcbiOstream& out, bool deleteOut)); - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbimisc.hpp:1192:38: note: in definition of macro 'NCBI_DEPRECATED_CTOR' - 1192 | # define NCBI_DEPRECATED_CTOR(decl) decl NCBI_DEPRECATED - | ^~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastxml_format.cpp: In function 'void ncbi::BlastXML_FormatReport(objects::CBlastOutput&, const IBlastXMLReportData*, CNcbiOstream*, SBlastXMLIncremental*)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastxml_format.cpp:719:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 719 | auto_ptr< CBlastFormattingMatrix > matrix(data->GetMatrix()); - | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastxml_format.cpp: In function 'bool ncbi::s_SerializeAndSplitBy(const CSerialObject&, const char*, std::string&, std::string&, bool, bool)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastxml_format.cpp:785:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 785 | auto_ptr xml_one_iter_os(new CObjectOStreamXml (one_iter_ss_os,false)); - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/data4xmlformat.hpp: In member function 'virtual std::string ncbi::CCmdLineBlastXMLReportData::GetFilterString() const': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/data4xmlformat.hpp:155:38: warning: 'char* ncbi::blast::CBlastOptions::GetFilterString() const' is deprecated [-Wdeprecated-declarations] + 155 | m_Options.GetFilterString(); /* NCBI_FAKE_WARNING */ + | ~~~~~~~~~~~~~~~~~~~~~~~~~^~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/data4xmlformat.hpp:42: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:178:27: note: declared here + 178 | NCBI_DEPRECATED char* GetFilterString() const; + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 654 | auto_ptr m_GeneInfoReader; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastxml_format.cpp:785:96: warning: 'ncbi::CObjectOStreamXml::CObjectOStreamXml(ncbi::CNcbiOstream&, bool)' is deprecated [-Wdeprecated-declarations] - 785 | auto_ptr xml_one_iter_os(new CObjectOStreamXml (one_iter_ss_os,false)); - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/objostrxml.hpp:66:26: note: declared here - 66 | NCBI_DEPRECATED_CTOR(CObjectOStreamXml(CNcbiOstream& out, bool deleteOut)); - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbimisc.hpp:1192:38: note: in definition of macro 'NCBI_DEPRECATED_CTOR' - 1192 | # define NCBI_DEPRECATED_CTOR(decl) decl NCBI_DEPRECATED - | ^~~~ -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/segmasker' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=segmasker /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/segmasker/segmasker.cpp -o segmasker.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie segmasker.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxobjsimple -lxalgosegmask -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o segmasker -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f segmasker /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f segmasker /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/segmasker -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/segmasker' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/segmasker' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 449 | auto_ptr m_ConfigFile; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/convert2blastmask.cpp: In member function 'virtual void CConvert2BlastMaskApplication::Init()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/convert2blastmask.cpp:148:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 148 | auto_ptr arg_desc(new CArgDescriptions); | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:450:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 450 | auto_ptr m_Reg; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/convert2blastmask.cpp: In member function 'virtual int CConvert2BlastMaskApplication::Run()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/convert2blastmask.cpp:223:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 223 | auto_ptr reader(x_GetReader()); + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:53: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 65 | auto_ptr m_FileStream; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/convert2blastmask.cpp:224:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 224 | auto_ptr writer(x_GetWriter()); + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:53: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 65 | auto_ptr m_FileStream; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/tabular.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:47: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 108 | auto_ptr m_memGi2GeneFile; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 156 | auto_ptr m_DecompressIStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 111 | auto_ptr m_memGene2OffsetFile; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 157 | auto_ptr m_CompressOStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 114 | auto_ptr m_memGi2OffsetFile; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 156 | auto_ptr m_DecompressIStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 117 | auto_ptr m_memGene2GiFile; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 157 | auto_ptr m_CompressOStream; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1554 | static auto_ptr m_GeneInfoReader; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 875 | auto_ptr m_DecompressIStream; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:48: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 654 | auto_ptr m_GeneInfoReader; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 875 | auto_ptr m_DecompressIStream; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:53: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 65 | auto_ptr m_FileStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=convert2blastmask /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/convert2blastmask.cpp -o convert2blastmask.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie convert2blastmask.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -llmdb -lpthread -lm -lpthread -o convert2blastmask -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f convert2blastmask /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f convert2blastmask /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/convert2blastmask -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:414:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 414 | auto_ptr m_SamFormatter; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 156 | auto_ptr m_DecompressIStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:414:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 414 | auto_ptr m_SamFormatter; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 157 | auto_ptr m_CompressOStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -60597,6 +60555,12 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 875 | auto_ptr m_DecompressIStream; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 156 | auto_ptr m_DecompressIStream; | ^~~~~~~~ @@ -60615,6 +60579,25 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:414:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 414 | auto_ptr m_SamFormatter; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/segmasker' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=segmasker /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/segmasker/segmasker.cpp -o segmasker.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie segmasker.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxobjsimple -lxalgosegmask -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o segmasker +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f segmasker /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f segmasker /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/segmasker +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/segmasker' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/segmasker' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:414:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 414 | auto_ptr m_SamFormatter; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blast_format.cpp:41: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 364 | auto_ptr &feat_ci, @@ -60628,6 +60611,18 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 449 | auto_ptr m_ConfigFile; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:450:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 450 | auto_ptr m_Reg; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blast_format.cpp:49: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/data4xmlformat.hpp: In member function 'virtual std::string ncbi::CCmdLineBlastXMLReportData::GetFilterString() const': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/data4xmlformat.hpp:155:38: warning: 'char* ncbi::blast::CBlastOptions::GetFilterString() const' is deprecated [-Wdeprecated-declarations] @@ -60656,6 +60651,32 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:53: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 65 | auto_ptr m_FileStream; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 156 | auto_ptr m_DecompressIStream; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 157 | auto_ptr m_CompressOStream; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 875 | auto_ptr m_DecompressIStream; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=tracebacksearch_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/tracebacksearch_unit_test.cpp -o tracebacksearch_unit_test.o /usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie tracebacksearch_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o tracebacksearch_unit_test @@ -60663,16 +60684,6 @@ /bin/ln -f tracebacksearch_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/tracebacksearch_unit_test make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:414:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 414 | auto_ptr m_SamFormatter; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blast_async_format.cpp: In member function 'virtual void* CBlastAsyncFormatThread::Main()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blast_async_format.cpp:122:49: warning: comparison of integer expressions of different signedness: 'std::map >::size_type' {aka 'long unsigned int'} and 'int' [-Wsign-compare] - 122 | if (m_ResultsMap.size() != currNum) - | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/misc/jsonwrapp/jsonwrapp11.hpp:75, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/misc/jsonwrapp/jsonwrapp.hpp:29, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blast_format.cpp:53: @@ -60700,12 +60711,29 @@ make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=uniform_search_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/uniform_search_unit_test.cpp -o uniform_search_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie uniform_search_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o uniform_search_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f uniform_search_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f uniform_search_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/uniform_search_unit_test +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=split_query_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/split_query_unit_test.cpp -o split_query_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie split_query_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o split_query_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f split_query_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f split_query_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/split_query_unit_test make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:414:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 414 | auto_ptr m_SamFormatter; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blast_async_format.cpp: In member function 'virtual void* CBlastAsyncFormatThread::Main()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blast_async_format.cpp:122:49: warning: comparison of integer expressions of different signedness: 'std::map >::size_type' {aka 'long unsigned int'} and 'int' [-Wsign-compare] + 122 | if (m_ResultsMap.size() != currNum) + | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=convert2blastmask /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/convert2blastmask.cpp -o convert2blastmask.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie convert2blastmask.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -llmdb -lpthread -lm -lpthread -o convert2blastmask +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f convert2blastmask /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f convert2blastmask /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/convert2blastmask +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/misc/jsonwrapp/rapidjson11/document.h: In instantiation of 'void rapidjson::GenericValue::SetObjectRaw(Member*, rapidjson::SizeType, Allocator&) [with Encoding = rapidjson::UTF8<>; Allocator = rapidjson::MemoryPoolAllocator<>; Member = rapidjson::GenericMember, rapidjson::MemoryPoolAllocator<> >; rapidjson::SizeType = unsigned int]': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/misc/jsonwrapp/rapidjson11/document.h:2501:55: required from 'bool rapidjson::GenericDocument::EndObject(rapidjson::SizeType) [with Encoding = rapidjson::UTF8<>; Allocator = rapidjson::MemoryPoolAllocator<>; StackAllocator = rapidjson::CrtAllocator; rapidjson::SizeType = unsigned int]' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/misc/jsonwrapp/rapidjson11/reader.h:1721:40: required from 'rapidjson::GenericReader::IterativeParsingState rapidjson::GenericReader::Transit(IterativeParsingState, Token, IterativeParsingState, InputStream&, Handler&) [with unsigned int parseFlags = 8; InputStream = rapidjson::GenericStringStream >; Handler = rapidjson::GenericDocument >; SourceEncoding = rapidjson::UTF8<>; TargetEncoding = rapidjson::UTF8<>; StackAllocator = rapidjson::CrtAllocator]' @@ -60735,10 +60763,17 @@ 564 | class GenericValue { | ^~~~~~~~~~~~ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=split_query_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/split_query_unit_test.cpp -o split_query_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie split_query_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o split_query_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f split_query_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f split_query_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/split_query_unit_test +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=uniform_search_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/uniform_search_unit_test.cpp -o uniform_search_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie uniform_search_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o uniform_search_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f uniform_search_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f uniform_search_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/uniform_search_unit_test +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=remote_blast_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/remote_blast_unit_test.cpp -o remote_blast_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie remote_blast_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o remote_blast_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f remote_blast_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f remote_blast_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/remote_blast_unit_test make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' le-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/data4xml2format.cpp -o data4xml2format.o @@ -60758,99 +60793,139 @@ cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=blast_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=delta_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=magicblast_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=psiblast_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/blastinput/unit_test' make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=psiblast_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=redoalignment_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: warning: -j12 forced in submake: resetting jobserver mode. +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=redoalignment_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' cd algo/blast/unit_tests/blast_format/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=blast_format_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/blast_format' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. cd algo/blast/unit_tests/blastdb/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=bdbloader_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/blastdb' make[4]: warning: -j12 forced in submake: resetting jobserver mode. cd app/blast/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=blast_formatter LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/blastdb' cd app/blast/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=blast_report LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -cd app/blast/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=blastn LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/blast_format' make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +cd app/blast/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=blastn LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/blastinput/unit_test' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/blastinput/unit_test' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/blastinput/unit_test' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/blastinput/unit_test' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=bl2seq_unit_test -w -j12 --jobserver-auth=7,8 all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/blastinput/unit_test' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/blastinput/unit_test' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=blast_unit_test -w -j12 --jobserver-auth=7,8 all +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/blastdb' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test TMPL=blastinput_unit_test -w -j12 --jobserver-auth=7,8 all make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/blast_format' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/blastdb' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/blast_format' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/blastinput/unit_test' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/blast_format' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/blastdb' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast TMPL=blast_formatter -w -j12 --jobserver-auth=7,8 all make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/blast_format' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/blastdb' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/blastdb' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test TMPL=blastinput_unit_test -w -j12 --jobserver-auth=7,8 all -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=blast_unit_test -w -j12 --jobserver-auth=7,8 all +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format TMPL=blast_format_unit_test -w -j12 --jobserver-auth=7,8 all +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blastdb TMPL=bdbloader_unit_test -w -j12 --jobserver-auth=7,8 all +make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/blastdb' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format TMPL=blast_format_unit_test -w -j12 --jobserver-auth=7,8 all +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blastdb TMPL=bdbloader_unit_test -w -j12 --jobserver-auth=7,8 all -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast TMPL=blast_report -w -j12 --jobserver-auth=7,8 all +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/blast_format' /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLASTFORMAT -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=blast_format_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/seqalignfilter_unit_test.cpp -o seqalignfilter_unit_test.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLASTFORMAT -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=blast_format_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/blastfmtutil_unit_test.cpp -o blastfmtutil_unit_test.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLASTFORMAT -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=blast_format_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/build_archive_unit_test.cpp -o build_archive_unit_test.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLASTFORMAT -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=blast_format_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/vecscreen_run_unit_test.cpp -o vecscreen_run_unit_test.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLASTFORMAT -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=blast_format_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_formake[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLASTFORMAT -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=blast_format_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_for/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=delta_unit_test -w -j12 --jobserver-auth=7,8 all +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast TMPL=blast_report -w -j12 --jobserver-auth=7,8 all +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=psiblast_unit_test -w -j12 --jobserver-auth=7,8 all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=magicblast_unit_test -w -j12 --jobserver-auth=7,8 all make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=bl2seq_unit_test -w -j12 --jobserver-auth=7,8 all -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast TMPL=blastn -w -j12 --jobserver-auth=7,8 all +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=redoalignment_unit_test -w -j12 --jobserver-auth=7,8 all +make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blast_scope_src_unit_test.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blast_unit_test.cpp:39: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -60888,8 +60963,11 @@ 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ + 170 | CVersion(const SBuildInfo& build_info = NCBI_SBIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_formatter.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ @@ -60902,12 +60980,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ @@ -60920,12 +60998,14 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:85: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/nUILDINFO_DEFAULT()) + | ^ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ @@ -60938,12 +61018,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:77: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ @@ -60956,14 +61036,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_report.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:85: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ @@ -60976,12 +61054,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:77: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ @@ -60994,13 +61072,10 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^~~~~~~~~~~~~~~~~~~~~~~ +cbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' @@ -61069,9 +61144,11 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blast_unit_test.cpp:39: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -61180,10 +61257,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast TMPL=blast_formatter -w -j12 --jobserver-auth=7,8 all In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blast_scope_src_unit_test.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -61292,9 +61368,31 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:49, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_formatter.cpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:76: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blastdb/bdbloader_unit_test.cpp:47: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/blastfmtutil_unit_test.cpp:51: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -61403,10 +61501,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/vecscreen_run_unit_test.cpp:51: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/delta_unit_test.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -61444,69 +61541,7 @@ 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 170 | CVersion(const SBuildInfo& buiIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:49, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_report.cpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:76: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blast_input_unit_test_aux.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:64: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUIL ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^~~~~~~~~~~~~~~~~~~~~~~ -D_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelibld_info = NCBI_SBUILDINFO_DEFAULT()) + 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ @@ -61579,7 +61614,7 @@ | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/build_archive_unit_test.cpp:55: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/redoalignment_unit_test.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -61590,50 +61625,17 @@ 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) | ^~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI/version.hpp:170:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:5_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | 2:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/b ^ + | ^ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ @@ -61644,16 +61646,7 @@ 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFuild/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:85: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUO_DEFAULT_IMPL() + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) @@ -61685,47 +61678,17 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/ILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:85: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT() ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:77: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^~~~~~~~~~~~~~~~~~~~~~~ -) + 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ @@ -61761,8 +61724,7 @@ 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/blastfmtutil_unit_test.cpp:51: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastn_node.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -61872,8 +61834,46 @@ 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastn_app.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/seqalignfilter_unit_test.cpp:53: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/magicblast_unit_test.cpp:32: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -61949,6 +61949,50 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:85: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_report.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +T_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:85: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ @@ -61982,47 +62026,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast TMPL=blastn -w -j12 --jobserver-auth=7,8 all -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=delta_unit_test -w -j12 --jobserver-auth=7,8 all -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=magicblast_unit_test -w -j12 --jobserver-auth=7,8 all -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=redoalignment_unit_test -w -j12 --jobserver-auth=7,8 all -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=psiblast_unit_test -w -j12 --jobserver-auth=7,8 all In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:49, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/blast_format_unit_test.cpp:54: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/psiblast_unit_test.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -62038,6 +62044,39 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:77: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^~~~~~~~~~~~~~~~~~~~~~~ @@ -62131,34 +62170,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:76: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^~~~~~~~~~~~~~~~~~~~~~~ -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_formatter.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ @@ -62266,7 +62277,8 @@ | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/redoalignment_unit_test.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blast_input_unit_test_aux.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:64: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -62377,7 +62389,7 @@ | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/delta_unit_test.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/seqalignfilter_unit_test.cpp:53: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -62487,7 +62499,8 @@ 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastn_node.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/vecscreen_run_unit_test.cpp:51: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -62598,7 +62611,7 @@ | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/magicblast_unit_test.cpp:32: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blastdb/bdbloader_unit_test.cpp:47: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -62708,8 +62721,11 @@ 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/psiblast_unit_test.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:49, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/blast_format_unit_test.cpp:54: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -62818,8 +62834,27 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:76: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastn_app.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/build_archive_unit_test.cpp:55: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -62931,7 +62966,7 @@ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:41, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:49, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_formatter.cpp:41: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_report.cpp:41: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:76: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^ @@ -62953,7 +62988,7 @@ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:41, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:49, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastn_app.cpp:41: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastn_node.cpp:40: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:76: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^ @@ -62975,7 +63010,7 @@ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:41, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:49, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastn_node.cpp:40: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastn_app.cpp:41: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:76: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^ @@ -62994,7 +63029,7 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/build_archive_unit_test.cpp:39: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/blastfmtutil_unit_test.cpp:39: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ @@ -63006,52 +63041,11 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidbg.hpp:47, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbimisc.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiexpt.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/build_archive_unit_test.cpp:35: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/blastdb/bdbloader.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blastdb/bdbloader_unit_test.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/blastdb/bdbloader.hpp:38: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blast_scope_src_unit_test.cpp:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/redoalignment_unit_test.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/blastfmtutil_unit_test.cpp:35: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/blastfmtutil_unit_test.cpp:39: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/blast_format_unit_test.cpp:40: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ @@ -63063,15 +63057,15 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidbg.hpp:47, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbimisc.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiexpt.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/blastfmtutil_unit_test.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/blast_format_unit_test.cpp:35: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_report.cpp:39: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/bl2seq.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -63079,11 +63073,8 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -63099,23 +63090,21 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/vecscreen_run_unit_test.cpp:39: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/blastdb/bdbloader.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blastdb/bdbloader_unit_test.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbictype.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistre.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_stack.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidbg.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbimisc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiexpt.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/vecscreen_run_unit_test.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/blastdb/bdbloader.hpp:38: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/blast_format_unit_test.cpp:40: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/vecscreen_run_unit_test.cpp:39: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ @@ -63127,19 +63116,13 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidbg.hpp:47, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbimisc.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiexpt.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/blast_format_unit_test.cpp:35: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 743 | auto_ptr m_ObjectStream; - | ^~~~~~~~ + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/vecscreen_run_unit_test.cpp:35: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/redoalignment_unit_test.cpp:38: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/blastfmtutil_unit_test.cpp:40: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -63158,20 +63141,12 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_report.cpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 65 | auto_ptr m_FileStream; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/psiblast.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/psiblast_unit_test.cpp:39: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_seqinfosrc.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/seqinfosrc_seqdb.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/seqalignfilter_unit_test.cpp:41: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -63179,62 +63154,10 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/tabular.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:47: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 108 | auto_ptr m_memGi2GeneFile; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 111 | auto_ptr m_memGene2OffsetFile; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 114 | auto_ptr m_memGi2OffsetFile; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 117 | auto_ptr m_memGene2GiFile; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1554 | static auto_ptr m_GeneInfoReader; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/build_archive_unit_test.cpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_loc_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_loc.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/seqalignfilter_unit_test.cpp:35: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -63250,104 +63173,42 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:48: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/build_archive_unit_test.cpp:39: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 654 | auto_ptr m_GeneInfoReader; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbictype.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistre.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_stack.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidbg.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbimisc.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiexpt.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/build_archive_unit_test.cpp:35: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/blast_format_unit_test.cpp:41: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/prelim_stage.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/local_blast.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastn_app.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:34: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:45: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/psiblast_unit_test.cpp:44: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/delta_unit_test.cpp:47: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/bl2seq.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -63367,7 +63228,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_formatter.cpp:39: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_report.cpp:39: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -63395,135 +63256,9 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 449 | auto_ptr m_ConfigFile; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:450:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 450 | auto_ptr m_Reg; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_seqinfosrc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/seqinfosrc_seqdb.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/seqalignfilter_unit_test.cpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_loc_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_loc.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/seqalignfilter_unit_test.cpp:35: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/redoalignment_unit_test.cpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/seq_loc_util.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blast_scope_src_unit_test.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/blastfmtutil_unit_test.cpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/blast_format_unit_test.cpp:42: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/build_archive_unit_test.cpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/tabular.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:47: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:49: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 108 | auto_ptr m_memGi2GeneFile; | ^~~~~~~~ @@ -63554,16 +63289,21 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 743 | auto_ptr m_ObjectStream; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/blastfmtutil_unit_test.cpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/blastdb/bdbloader.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blast_test_util.hpp:56, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/delta_unit_test.cpp:66: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:41: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ @@ -63572,14 +63312,17 @@ | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:48: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/blast_format_unit_test.cpp:41: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/redoalignment_unit_test.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ @@ -63592,40 +63335,38 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:48: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 654 | auto_ptr m_GeneInfoReader; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_formatter.cpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 65 | auto_ptr m_FileStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 654 | auto_ptr m_GeneInfoReader; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blastdb/bdbloader_unit_test.cpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blast_scope_src_unit_test.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/prelim_stage.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/local_blast.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastn_node.cpp:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:34: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, @@ -63633,44 +63374,21 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:45: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=blast_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blast_unit_test.cpp -o blast_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie blast_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -llmdb -lpthread -lm -lpthread -o blast_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blast_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f blast_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blast_unit_test +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/prelim_stage.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/local_blast.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastn_app.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_formatter.cpp:39: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -63698,258 +63416,24 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/magicblast.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/magicblast_unit_test.cpp:54: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/tabular.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:47: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 108 | auto_ptr m_memGi2GeneFile; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 111 | auto_ptr m_memGene2OffsetFile; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 114 | auto_ptr m_memGi2OffsetFile; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 117 | auto_ptr m_memGene2GiFile; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1554 | static auto_ptr m_GeneInfoReader; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/vecscreen_run_unit_test.cpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:51: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 65 | auto_ptr m_FileStream; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:48: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/build_archive.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/build_archive_unit_test.cpp:52: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 743 | auto_ptr m_ObjectStream; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 654 | auto_ptr m_GeneInfoReader; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/blastfmtutil_unit_test.cpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blast_scope_src_unit_test.cpp:43: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastn_app.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 743 | auto_ptr m_ObjectStream; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 449 | auto_ptr m_ConfigFile; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:450:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 450 | auto_ptr m_Reg; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/seqalignfilter_unit_test.cpp: In function 'void s_LoadSeqAlignsFromFile(ncbi::objects::CSeq_align_set&, const std::string&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/seqalignfilter_unit_test.cpp:241:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 241 | auto_ptr asn_in(CObjectIStream::Open(fname, eSerial_AsnText)); - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastn_app.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 449 | auto_ptr m_ConfigFile; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:450:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 450 | auto_ptr m_Reg; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=blast_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blast_unit_test.cpp -o blast_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie blast_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -llmdb -lpthread -lm -lpthread -o blast_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blast_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f blast_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blast_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' cd app/blast/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=blastp LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:53: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 156 | auto_ptr m_DecompressIStream; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 157 | auto_ptr m_CompressOStream; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 875 | auto_ptr m_DecompressIStream; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast TMPL=blastp -w -j12 --jobserver-auth=7,8 all +make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/blastfmtutil_unit_test.cpp:46: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 108 | auto_ptr m_memGi2GeneFile; | ^~~~~~~~ -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast TMPL=blastp -w -j12 --jobserver-auth=7,8 all /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -63971,45 +63455,15 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blastn_args.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastn_app.cpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 65 | auto_ptr m_FileStream; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1554 | static auto_ptr m_GeneInfoReader; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:49: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 108 | auto_ptr m_memGi2GeneFile; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 111 | auto_ptr m_memGene2OffsetFile; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 114 | auto_ptr m_memGi2OffsetFile; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 117 | auto_ptr m_memGene2GiFile; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:61: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -64019,121 +63473,41 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:414:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 414 | auto_ptr m_SamFormatter; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 156 | auto_ptr m_DecompressIStream; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 157 | auto_ptr m_CompressOStream; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:53: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 65 | auto_ptr m_FileStream; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 875 | auto_ptr m_DecompressIStream; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastn_node.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 743 | auto_ptr m_ObjectStream; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 654 | auto_ptr m_GeneInfoReader; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 156 | auto_ptr m_DecompressIStream; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 157 | auto_ptr m_CompressOStream; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_report.cpp: In member function 'virtual void CBlastReportApp::Init()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_report.cpp:107:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 107 | auto_ptr arg_desc(new CArgDescriptions); - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 875 | auto_ptr m_DecompressIStream; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/vecscreen_run_unit_test.cpp:42: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/prelim_stage.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/local_blast.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastn_node.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:52: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastn_node.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastp_node.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] @@ -64226,12 +63600,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 654 | auto_ptr m_GeneInfoReader; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:77: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^ @@ -64250,18 +63618,16 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/redoalignment_unit_test.cpp:65: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 654 | auto_ptr m_GeneInfoReader; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 743 | auto_ptr m_ObjectStream; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastp_app.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] @@ -64372,6 +63738,49 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastn_app.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 743 | auto_ptr m_ObjectStream; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 743 | auto_ptr m_ObjectStream; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_formatter.cpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 65 | auto_ptr m_FileStream; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_report.cpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 65 | auto_ptr m_FileStream; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:68: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:41, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:49, @@ -64394,26 +63803,97 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/redoalignment_unit_test.cpp: In static member function 'static void CRedoAlignmentTestFixture::runRedoAlignmentCoreUnitTest(EBlastProgramType, ncbi::objects::CSeq_id&, ncbi::objects::CSeq_id&, BlastHSPList*, const BlastHSPList*, Int8, ECompoAdjustModes, bool, double, int)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/redoalignment_unit_test.cpp:210:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 210 | auto_ptr qsl(CTestObjMgr::Instance().CreateSSeqLoc(qid)); +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/delta_unit_test.cpp:47: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/redoalignment_unit_test.cpp:211:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 211 | auto_ptr ssl(CTestObjMgr::Instance().CreateSSeqLoc(sid)); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/redoalignment_unit_test.cpp: In member function 'void RedoAlignment::testRedoAlignmentWithCompBasedStatsBadlyBiasedSequence::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/redoalignment_unit_test.cpp:636:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 636 | auto_ptr ssl(CTestObjMgr::Instance().CreateSSeqLoc(subj_id)); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/tabular.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:47: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 108 | auto_ptr m_memGi2GeneFile; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 111 | auto_ptr m_memGene2OffsetFile; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 114 | auto_ptr m_memGi2OffsetFile; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 117 | auto_ptr m_memGene2GiFile; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/vecscreen_run_unit_test.cpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastn_app.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1554 | static auto_ptr m_GeneInfoReader; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:41, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:49, @@ -64423,13 +63903,7 @@ | ^ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:414:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 414 | auto_ptr m_SamFormatter; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -^~~~~~~~ + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) | ^~~~~~~~~~~~~~~ @@ -64442,29 +63916,107 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/vecscreen_run.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/vecscreen_run_unit_test.cpp:48: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 108 | auto_ptr m_memGi2GeneFile; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::ProteinBlastSelfHit::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:584:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 584 | auto_ptr sl(CTestObjMgr::Instance().CreateSSeqLoc(id)); | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 111 | auto_ptr m_memGene2OffsetFile; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::TBlastn2Seqs::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:627:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 627 | auto_ptr query(CTestObjMgr::Instance().CreateSSeqLoc(qid)); | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 114 | auto_ptr m_memGi2OffsetFile; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:630:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 630 | auto_ptr subj( | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 117 | auto_ptr m_memGene2GiFile; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::TBlastn2SeqsRevStrand1::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:666:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 666 | auto_ptr query(CTestObjMgr::Instance().CreateSSeqLoc(qid)); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:670:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 670 | auto_ptr subj(CTestObjMgr::Instance().CreateSSeqLoc(sid, range, eNa_strand_minus)); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::TBlastn2SeqsRevStrand2::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:694:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 694 | auto_ptr query(CTestObjMgr::Instance().CreateSSeqLoc(qid)); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:697:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 697 | auto_ptr subj(CTestObjMgr::Instance().CreateSSeqLoc(sid, eNa_strand_minus)); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::TBlastn2SeqsCompBasedStats::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:720:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 720 | auto_ptr query(CTestObjMgr::Instance().CreateSSeqLoc(qid)); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:723:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 723 | auto_ptr subj( + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::TBlastn2SeqsLargeWord::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:755:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 755 | auto_ptr query(CTestObjMgr::Instance().CreateSSeqLoc(qid)); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:758:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 758 | auto_ptr subj( + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/seqalignfilter_unit_test.cpp: In function 'void s_LoadSeqAlignsFromFile(ncbi::objects::CSeq_align_set&, const std::string&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/seqalignfilter_unit_test.cpp:241:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 241 | auto_ptr asn_in(CObjectIStream::Open(fname, eSerial_AsnText)); + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::IdenticalProteins::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:789:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 789 | auto_ptr query(CTestObjMgr::Instance().CreateSSeqLoc(qid)); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:791:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 791 | auto_ptr subj(CTestObjMgr::Instance().CreateSSeqLoc(sid)); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::PositiveMismatchOption::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:835:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 835 | auto_ptr query( + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:837:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 837 | auto_ptr subj(CTestObjMgr::Instance().CreateSSeqLoc(sid)); | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -64475,6 +64027,19 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 108 | auto_ptr m_memGi2GeneFile; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::FullyMaskedSequence::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:860:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 860 | auto_ptr query( + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:866:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 866 | auto_ptr subj( + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -64496,9 +64061,10 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1554 | static auto_ptr m_GeneInfoReader; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::MultipleQueries1FullyMasked::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:900:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 900 | auto_ptr envvar1, envvar2; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -64508,83 +64074,181 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:48: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 654 | auto_ptr m_GeneInfoReader; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::testInterruptBlastpExitImmediately::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:938:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 938 | auto_ptr sl(CTestObjMgr::Instance().CreateSSeqLoc(id)); | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:53: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 156 | auto_ptr m_DecompressIStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::Tblastn2Seqs_PlusStrandOnly::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:957:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 957 | auto_ptr ql(CTestObjMgr::Instance().CreateSSeqLoc(qid)); | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 157 | auto_ptr m_CompressOStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:963:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 963 | auto_ptr sl(CTestObjMgr::Instance().CreateSSeqLoc(sid, | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 875 | auto_ptr m_DecompressIStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::testInterruptBlastSetup::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:998:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 998 | auto_ptr sl(CTestObjMgr::Instance().CreateSSeqLoc(id)); | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:61: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::testInterruptBlastnExitImmediately::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:1014:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1014 | auto_ptr sl(CTestObjMgr::Instance().CreateSSeqLoc(id)); + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:54: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::testInterruptBlastxExitImmediately::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:1030:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1030 | auto_ptr slq(CTestObjMgr::Instance().CreateSSeqLoc(query_id)); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:1032:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1032 | auto_ptr sls(CTestObjMgr::Instance().CreateSSeqLoc(subj_id)); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::testInterruptTblastxExitImmediately::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:1048:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1048 | auto_ptr slq(CTestObjMgr::Instance().CreateSSeqLoc(query_id)); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:1050:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1050 | auto_ptr sls(CTestObjMgr::Instance().CreateSSeqLoc(subj_id)); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::testInterruptTblastnExitImmediately::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:1066:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1066 | auto_ptr slq(CTestObjMgr::Instance().CreateSSeqLoc(query_id)); + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/blast_format_unit_test.cpp:42: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 364 | auto_ptr &feat_ci, | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:1068:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1068 | auto_ptr sls(CTestObjMgr::Instance().CreateSSeqLoc(subj_id)); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 869 | auto_ptr m_Gen; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_async_format.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/blast_format_unit_test.cpp:55: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:48: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 654 | auto_ptr m_GeneInfoReader; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:414:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 414 | auto_ptr m_SamFormatter; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::testInterruptBlastpExitAfter3Callbacks::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:1276:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1276 | auto_ptr sl(CTestObjMgr::Instance().CreateSSeqLoc(id)); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::NucleotideBlastMultipleQueriesWithInvalidSeqId::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:1426:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1426 | auto_ptr sl1(CTestObjMgr::Instance().CreateSSeqLoc(*id1)); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:1428:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1428 | auto_ptr sl2(CTestObjMgr::Instance().CreateSSeqLoc(*id2)); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:1446:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1446 | auto_ptr sl_bad(new SSeqLoc(*fake_loc, *scope)); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:1458:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1458 | auto_ptr subj_loc + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::ProteinCompBasedStats::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:1620:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1620 | auto_ptr ss2(CTestObjMgr::Instance().CreateSSeqLoc(id)); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::Blastx2Seqs_QueryBothStrands::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:1640:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1640 | auto_ptr query( + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:1645:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1645 | auto_ptr subj(CTestObjMgr::Instance().CreateSSeqLoc(sid)); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::NucleotideSelfHitWithSubjectMask::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:1672:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1672 | auto_ptr subject(new SSeqLoc(ssl, scope, subj_mask)); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::NucleotideBlastSelfHit::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:1690:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1690 | auto_ptr sl( + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::MegablastGreedyTraceback::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:1724:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1724 | auto_ptr ql( + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:1729:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1729 | auto_ptr sl( | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -64601,94 +64265,316 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/build_archive.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/blast_format_unit_test.cpp:58: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 743 | auto_ptr m_ObjectStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::MegablastGreedyTracebackSelfHits::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:1844:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1844 | auto_ptr ql( | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blastp_args.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:57: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 156 | auto_ptr m_DecompressIStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:1849:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1849 | auto_ptr sl( | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 157 | auto_ptr m_CompressOStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::Blastx2Seqs_QueryPlusStrand::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:1878:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1878 | auto_ptr query( | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/request_result.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/reader_id2_base.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/id2/reader_id2.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_formatter.cpp:45: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:1882:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1882 | auto_ptr subj(CTestObjMgr::Instance().CreateSSeqLoc(sid)); | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 875 | auto_ptr m_DecompressIStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::Blastx2Seqs_QueryMinusStrand::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:1892:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1892 | auto_ptr query( | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/blastfmtutil_unit_test.cpp: In member function 'void blastfmtutil::GetAlnScoresAndGetScoreString::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/blastfmtutil_unit_test.cpp:168:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 168 | auto_ptr in(CObjectIStream::Open(eSerial_AsnText, is)); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:1896:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1896 | auto_ptr subj(CTestObjMgr::Instance().CreateSSeqLoc(sid)); | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/blastfmtutil_unit_test.cpp: In member function 'void blastfmtutil::GetSubjectQueryCoverageScore::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/blastfmtutil_unit_test.cpp:201:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 201 | auto_ptr in(CObjectIStream::Open(eSerial_AsnText, is)); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::TBlastx2Seqs_QueryBothStrands::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:1907:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1907 | auto_ptr sl( | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/tabular.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:47: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 108 | auto_ptr m_memGi2GeneFile; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::TBlastx2Seqs_QueryPlusStrand::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:1920:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1920 | auto_ptr sl( | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 111 | auto_ptr m_memGene2OffsetFile; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::TBlastx2Seqs_QueryMinusStrand::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:1931:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1931 | auto_ptr sl( | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 114 | auto_ptr m_memGi2OffsetFile; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::TblastxManyHits::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:1949:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1949 | auto_ptr qsl( | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 117 | auto_ptr m_memGene2GiFile; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:1953:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1953 | auto_ptr ssl( | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1554 | static auto_ptr m_GeneInfoReader; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::ProteinBlast2Seqs::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:1986:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1986 | auto_ptr query(CTestObjMgr::Instance().CreateSSeqLoc(id)); + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:48: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:68: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:1989:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1989 | auto_ptr subj(CTestObjMgr::Instance().CreateSSeqLoc(id)); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::BlastnWithRepeatFiltering_InvalidDB::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2001:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 2001 | auto_ptr query( + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::BlastnWithRepeatFiltering::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2022:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 2022 | auto_ptr query( + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::BlastnWithWindowMasker_Db::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2052:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 2052 | auto_ptr query( + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::BlastnWithWindowMasker_Taxid::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2072:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 2072 | auto_ptr query( + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::BlastnWithWindowMasker_InvalidDb::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2087:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 2087 | auto_ptr query( + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::BlastnWithWindowMasker_InvalidTaxid::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2104:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 2104 | auto_ptr query( + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/blastdb/bdbloader.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blast_test_util.hpp:56, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/delta_unit_test.cpp:66: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 654 | auto_ptr m_GeneInfoReader; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::BlastnWithWindowMasker_DbAndTaxid::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2132:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 2132 | auto_ptr query( + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::Alex::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2158:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 2158 | auto_ptr query( + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2163:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 2163 | auto_ptr subj( + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::NucleotideBlast2Seqs::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2178:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 2178 | auto_ptr query( + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2182:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 2182 | auto_ptr subj( + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::ProteinBlastChangeQuery::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2197:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 2197 | auto_ptr query(CTestObjMgr::Instance().CreateSSeqLoc(id)); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2200:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 2200 | auto_ptr subj(CTestObjMgr::Instance().CreateSSeqLoc(id)); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::ProteinBlastChangeSubject::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2217:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 2217 | auto_ptr query(CTestObjMgr::Instance().CreateSSeqLoc(qid)); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2220:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 2220 | auto_ptr subj(CTestObjMgr::Instance().CreateSSeqLoc(sid)); + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/seq_loc_util.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blast_scope_src_unit_test.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::NucleotideBlastChangeQuery::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2238:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 2238 | auto_ptr query( + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2242:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 2242 | auto_ptr subj( + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::NucleotideBlastChangeSubject::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2263:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 2263 | auto_ptr query( + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2267:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 2267 | auto_ptr subj( + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::ProteinBlastMultipleQueries::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2290:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 2290 | auto_ptr sl1(CTestObjMgr::Instance().CreateSSeqLoc(qid)); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2294:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 2294 | auto_ptr sl2(CTestObjMgr::Instance().CreateSSeqLoc(sid)); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::NucleotideBlastMultipleQueries::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2344:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 2344 | auto_ptr sl1( + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2350:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 2350 | auto_ptr sl2( + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::TblastnOutOfFrame::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2469:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 2469 | auto_ptr query(CTestObjMgr::Instance().CreateSSeqLoc(qid)); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2470:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 2470 | auto_ptr subj(CTestObjMgr::Instance().CreateSSeqLoc(sid)); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/vecscreen_run_unit_test.cpp:42: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 364 | auto_ptr &feat_ci, | ^~~~~~~~ @@ -64701,712 +64587,718 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::ProteinBlastSelfHit::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:584:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 584 | auto_ptr sl(CTestObjMgr::Instance().CreateSSeqLoc(id)); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::TblastnOutOfFrame2::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2494:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 2494 | auto_ptr query(CTestObjMgr::Instance().CreateSSeqLoc(qid)); | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_formatter.cpp: In member function 'virtual void CBlastFormatterApp::Init()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_formatter.cpp:116:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 116 | auto_ptr arg_desc(new CArgDescriptions); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2495:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 2495 | auto_ptr subj(CTestObjMgr::Instance().CreateSSeqLoc(sid)); | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::TBlastn2Seqs::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:627:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 627 | auto_ptr query(CTestObjMgr::Instance().CreateSSeqLoc(qid)); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::BlastxOutOfFrame::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2526:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 2526 | auto_ptr query( | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:630:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 630 | auto_ptr subj( +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2528:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 2528 | auto_ptr subj(CTestObjMgr::Instance().CreateSSeqLoc(sid)); | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::TBlastn2SeqsRevStrand1::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:666:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 666 | auto_ptr query(CTestObjMgr::Instance().CreateSSeqLoc(qid)); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::BlastxOutOfFrame_DifferentFrames::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2552:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 2552 | auto_ptr query( | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:670:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 670 | auto_ptr subj(CTestObjMgr::Instance().CreateSSeqLoc(sid, range, eNa_strand_minus)); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2554:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 2554 | auto_ptr subj(CTestObjMgr::Instance().CreateSSeqLoc(sid)); | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::TBlastn2SeqsRevStrand2::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:694:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 694 | auto_ptr query(CTestObjMgr::Instance().CreateSSeqLoc(qid)); +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blastdb/bdbloader_unit_test.cpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:697:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 697 | auto_ptr subj(CTestObjMgr::Instance().CreateSSeqLoc(sid, eNa_strand_minus)); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::TBlastn2SeqsCompBasedStats::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:720:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 720 | auto_ptr query(CTestObjMgr::Instance().CreateSSeqLoc(qid)); - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:723:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 723 | auto_ptr subj( +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastn_node.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 743 | auto_ptr m_ObjectStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::TBlastn2SeqsLargeWord::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:755:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 755 | auto_ptr query(CTestObjMgr::Instance().CreateSSeqLoc(qid)); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::Blastn_QueryBothStrands_SubjBothStrands::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2710:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 2710 | auto_ptr query( | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:758:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 758 | auto_ptr subj( +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2717:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 2717 | auto_ptr subj( | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::IdenticalProteins::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:789:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 789 | auto_ptr query(CTestObjMgr::Instance().CreateSSeqLoc(qid)); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::Blastn_QueryBothStrands_SubjPlusStrand::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2733:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 2733 | auto_ptr query( | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:791:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 791 | auto_ptr subj(CTestObjMgr::Instance().CreateSSeqLoc(sid)); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2740:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 2740 | auto_ptr subj( | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::PositiveMismatchOption::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:835:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 835 | auto_ptr query( +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::Blastn_QueryBothStrands_SubjMinusStrand::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2756:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 2756 | auto_ptr query( | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:837:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 837 | auto_ptr subj(CTestObjMgr::Instance().CreateSSeqLoc(sid)); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2763:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 2763 | auto_ptr subj( | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::FullyMaskedSequence::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:860:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 860 | auto_ptr query( +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::Blastn_QueryPlusStrand_SubjPlusStrand::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2779:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 2779 | auto_ptr query( | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:866:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 866 | auto_ptr subj( +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2786:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 2786 | auto_ptr subj( | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::MultipleQueries1FullyMasked::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:900:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 900 | auto_ptr envvar1, envvar2; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/tabular.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:47: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 108 | auto_ptr m_memGi2GeneFile; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::testInterruptBlastpExitImmediately::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:938:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 938 | auto_ptr sl(CTestObjMgr::Instance().CreateSSeqLoc(id)); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 111 | auto_ptr m_memGene2OffsetFile; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::Tblastn2Seqs_PlusStrandOnly::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:957:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 957 | auto_ptr ql(CTestObjMgr::Instance().CreateSSeqLoc(qid)); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 114 | auto_ptr m_memGi2OffsetFile; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:963:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 963 | auto_ptr sl(CTestObjMgr::Instance().CreateSSeqLoc(sid, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 117 | auto_ptr m_memGene2GiFile; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::testInterruptBlastSetup::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:998:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 998 | auto_ptr sl(CTestObjMgr::Instance().CreateSSeqLoc(id)); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::Blastn_QueryPlusStrand_SubjMinusStrand::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2802:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 2802 | auto_ptr query( | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::testInterruptBlastnExitImmediately::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:1014:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1014 | auto_ptr sl(CTestObjMgr::Instance().CreateSSeqLoc(id)); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2809:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 2809 | auto_ptr subj( | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::testInterruptBlastxExitImmediately::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:1030:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1030 | auto_ptr slq(CTestObjMgr::Instance().CreateSSeqLoc(query_id)); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::Blastn_QueryPlusStrand_SubjBothStrands::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2826:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 2826 | auto_ptr query( | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:1032:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1032 | auto_ptr sls(CTestObjMgr::Instance().CreateSSeqLoc(subj_id)); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2833:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 2833 | auto_ptr subj( | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::testInterruptTblastxExitImmediately::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:1048:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1048 | auto_ptr slq(CTestObjMgr::Instance().CreateSSeqLoc(query_id)); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::Blastn_QueryMinusStrand_SubjMinusStrand::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2849:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 2849 | auto_ptr query( | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:1050:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1050 | auto_ptr sls(CTestObjMgr::Instance().CreateSSeqLoc(subj_id)); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2856:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 2856 | auto_ptr subj( + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/build_archive_unit_test.cpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::testInterruptTblastnExitImmediately::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:1066:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1066 | auto_ptr slq(CTestObjMgr::Instance().CreateSSeqLoc(query_id)); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:1068:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1068 | auto_ptr sls(CTestObjMgr::Instance().CreateSSeqLoc(subj_id)); - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:414:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 414 | auto_ptr m_SamFormatter; +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::Blastn_QueryMinusStrand_SubjPlusStrand::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2872:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 2872 | auto_ptr query( | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::testInterruptBlastpExitAfter3Callbacks::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:1276:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1276 | auto_ptr sl(CTestObjMgr::Instance().CreateSSeqLoc(id)); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2879:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 2879 | auto_ptr subj( | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp: In function 'std::string* blastinput::s_FileContents2String(const char*)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:1669:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1669 | auto_ptr retval(new string); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::Blastn_QueryMinusStrand_SubjBothStrands::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2895:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 2895 | auto_ptr query( | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp: In member function 'void blastinput::ReadAccessionNucleotideIntoBuffer_Single::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:1681:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1681 | auto_ptr user_input(s_FileContents2String(fname)); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2902:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 2902 | auto_ptr subj( | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp: In member function 'void blastinput::ReadGiNuclWithFlankingSpacesIntoBuffer_Single::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:1735:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1735 | auto_ptr user_input(new string(" 1945386 \n ")); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1554 | static auto_ptr m_GeneInfoReader; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::Blastn_QueryWhole_SubjInterval::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2917:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 2917 | auto_ptr query(CTestObjMgr::Instance().CreateWholeSSeqLoc(*qid)); | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::NucleotideBlastMultipleQueriesWithInvalidSeqId::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:1426:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1426 | auto_ptr sl1(CTestObjMgr::Instance().CreateSSeqLoc(*id1)); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2921:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 2921 | auto_ptr subj( | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:1428:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1428 | auto_ptr sl2(CTestObjMgr::Instance().CreateSSeqLoc(*id2)); +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::Blastn_QueryInterval_SubjWhole::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2936:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 2936 | auto_ptr query( | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:1446:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1446 | auto_ptr sl_bad(new SSeqLoc(*fake_loc, *scope)); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2941:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 2941 | auto_ptr subj(CTestObjMgr::Instance().CreateWholeSSeqLoc(*sid)); | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:1458:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1458 | auto_ptr subj_loc +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blastn_args.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastn_app.cpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 65 | auto_ptr m_FileStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp: In member function 'void blastinput::ReadAccessionNuclWithFlankingSpacesIntoBuffer_Single::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:1808:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1808 | auto_ptr user_input(new string(" X65215.1 ")); +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/redoalignment_unit_test.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp: In member function 'void blastinput::ReadFastaWithDeflineProteinIntoBuffer_Single::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:1882:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1882 | auto_ptr user_input(s_FileContents2String(fname)); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::ProteinCompBasedStats::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:1620:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1620 | auto_ptr ss2(CTestObjMgr::Instance().CreateSSeqLoc(id)); - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::Blastx2Seqs_QueryBothStrands::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:1640:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1640 | auto_ptr query( +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastn_node.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:1645:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1645 | auto_ptr subj(CTestObjMgr::Instance().CreateSSeqLoc(sid)); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::BlastOptionsEquality::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:3231:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 3231 | auto_ptr megablast_options_handle( | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::NucleotideSelfHitWithSubjectMask::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:1672:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1672 | auto_ptr subject(new SSeqLoc(ssl, scope, subj_mask)); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::BlastOptionsInequality::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:3245:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 3245 | auto_ptr blastn_options_handle( | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::NucleotideBlastSelfHit::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:1690:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1690 | auto_ptr sl( +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::DiscontiguousMB::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:3260:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 3260 | auto_ptr query( | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::MegablastGreedyTraceback::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:1724:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1724 | auto_ptr ql( +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:3262:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 3262 | auto_ptr subj(CTestObjMgr::Instance().CreateSSeqLoc(sid)); | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:1729:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1729 | auto_ptr sl( +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/vecscreen_run.hpp:45, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/vecscreen_run_unit_test.cpp:48: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 108 | auto_ptr m_memGi2GeneFile; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:48: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 654 | auto_ptr m_GeneInfoReader; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 111 | auto_ptr m_memGene2OffsetFile; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::MegablastGreedyTracebackSelfHits::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:1844:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1844 | auto_ptr ql( +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 114 | auto_ptr m_memGi2OffsetFile; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:1849:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1849 | auto_ptr sl( +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 117 | auto_ptr m_memGene2GiFile; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::Blastx2Seqs_QueryPlusStrand::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:1878:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1878 | auto_ptr query( +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::BlastnHumanChrom_MRNA::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:3279:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 3279 | auto_ptr query( | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:1882:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1882 | auto_ptr subj(CTestObjMgr::Instance().CreateSSeqLoc(sid)); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:3282:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 3282 | auto_ptr subj( | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::Blastx2Seqs_QueryMinusStrand::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:1892:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1892 | auto_ptr query( +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::testOneSubjectResults2CSeqAlign::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:3307:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 3307 | auto_ptr sl( | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:1896:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1896 | auto_ptr subj(CTestObjMgr::Instance().CreateSSeqLoc(sid)); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 156 | auto_ptr m_DecompressIStream; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::testMultiSeqSearchSymmetry::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:3346:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 3346 | auto_ptr sl( + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::TBlastx2Seqs_QueryBothStrands::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:1907:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1907 | auto_ptr sl( - | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::TBlastx2Seqs_QueryPlusStrand::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:1920:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1920 | auto_ptr sl( +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 157 | auto_ptr m_CompressOStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::TBlastx2Seqs_QueryMinusStrand::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:1931:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1931 | auto_ptr sl( - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1554 | static auto_ptr m_GeneInfoReader; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::TblastxManyHits::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:1949:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1949 | auto_ptr qsl( +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::testInterruptCallbackWithNull::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:3514:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 3514 | auto_ptr sl(CTestObjMgr::Instance().CreateSSeqLoc(id)); | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:1953:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1953 | auto_ptr ssl( +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::testInterruptCallbackDoNotInterrupt::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:3542:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 3542 | auto_ptr sl(CTestObjMgr::Instance().CreateSSeqLoc(id)); | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidbg.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbimisc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiexpt.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/tempstr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastn_app.cpp: In member function 'int CBlastnApp::x_RunMTBySplitQuery()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:197:8: warning: this 'if' clause does not guard... [-Wmisleading-indentation] - 197 | do if (NCBI_NS_NCBI::IsVisibleDiagPostLevel(NCBI_NS_NCBI::eDiag_##severity)) \ - | ^~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:200:28: note: in expansion of macro 'SEVERITY_POST' - 200 | #define INFO_POST(message) SEVERITY_POST(Info, message) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastn_app.cpp:320:17: note: in expansion of macro 'INFO_POST' - 320 | INFO_POST("Batch Size: " << batch_size); - | ^~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::ProteinBlast2Seqs::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:1986:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1986 | auto_ptr query(CTestObjMgr::Instance().CreateSSeqLoc(id)); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::QueryMaskIgnoredInMiniExtension::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:3602:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 3602 | auto_ptr query(new SSeqLoc(qloc, scope)); | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:1989:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1989 | auto_ptr subj(CTestObjMgr::Instance().CreateSSeqLoc(id)); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:3603:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 3603 | auto_ptr subject( | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::BlastnWithRepeatFiltering_InvalidDB::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2001:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 2001 | auto_ptr query( +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 875 | auto_ptr m_DecompressIStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:198:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' - 198 | ERR_POST(severity << message); while(0) - | ^~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:200:28: note: in expansion of macro 'SEVERITY_POST' - 200 | #define INFO_POST(message) SEVERITY_POST(Info, message) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastn_app.cpp:320:17: note: in expansion of macro 'INFO_POST' - 320 | INFO_POST("Batch Size: " << batch_size); - | ^~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::BlastnWithRepeatFiltering::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2022:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 2022 | auto_ptr query( +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:48: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 654 | auto_ptr m_GeneInfoReader; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::BlastnWithWindowMasker_Db::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2052:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 2052 | auto_ptr query( +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 449 | auto_ptr m_ConfigFile; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::BlastnWithWindowMasker_Taxid::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2072:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 2072 | auto_ptr query( +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:450:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 450 | auto_ptr m_Reg; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::BlastnWithWindowMasker_InvalidDb::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2087:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 2087 | auto_ptr query( +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:48: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::BlastnWithWindowMasker_InvalidTaxid::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2104:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 2104 | auto_ptr query( +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp: In member function 'ncbi::CArgs* blastargs::CString2Args::CreateCArgs(ncbi::blast::CBlastAppArgs&) const': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:3227:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 3227 | auto_ptr arg_desc(args.SetCommandLine()); - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::BlastnWithWindowMasker_DbAndTaxid::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2132:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 2132 | auto_ptr query( +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/magicblast.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/magicblast_unit_test.cpp:54: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp: In member function 'void blastargs::PsiBlastAppTestMatrix::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:3289:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 3289 | auto_ptr args(s2a.CreateCArgs(psiblast_args)); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/blastfmtutil_unit_test.cpp: In member function 'void blastfmtutil::GetAlnScoresAndGetScoreString::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/blastfmtutil_unit_test.cpp:168:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 168 | auto_ptr in(CObjectIStream::Open(eSerial_AsnText, is)); | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp: In member function 'void blastargs::RpsBlastCBS::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:3300:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 3300 | auto_ptr args(s2a.CreateCArgs(rpsblast_args)); - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/psiblast.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/psiblast_unit_test.cpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp: In member function 'void blastargs::CheckMutuallyExclusiveOptions::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:3320:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 3320 | auto_ptr args; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::Alex::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2158:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 2158 | auto_ptr query( - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2163:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 2163 | auto_ptr subj( +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp: In member function 'void blastargs::CheckDiscoMegablast::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:3327:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 3327 | auto_ptr args; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/blastfmtutil_unit_test.cpp: In member function 'void blastfmtutil::GetSubjectQueryCoverageScore::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/blastfmtutil_unit_test.cpp:201:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 201 | auto_ptr in(CObjectIStream::Open(eSerial_AsnText, is)); | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp: In member function 'void blastargs::CheckPercentIdentity::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:3351:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 3351 | auto_ptr args; - | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::NucleotideBlast2Seqs::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2178:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 2178 | auto_ptr query( - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2182:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 2182 | auto_ptr subj( - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp: In member function 'void blastargs::CheckNoGreedyExtension::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:3365:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 3365 | auto_ptr args; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::ProteinBlastChangeQuery::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2197:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 2197 | auto_ptr query(CTestObjMgr::Instance().CreateSSeqLoc(id)); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2200:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 2200 | auto_ptr subj(CTestObjMgr::Instance().CreateSSeqLoc(id)); +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:51: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 65 | auto_ptr m_FileStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp: In member function 'void blastargs::CheckCulling::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:3387:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 3387 | auto_ptr args; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/build_archive_unit_test.cpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::ProteinBlastChangeSubject::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2217:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 2217 | auto_ptr query(CTestObjMgr::Instance().CreateSSeqLoc(qid)); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2220:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 2220 | auto_ptr subj(CTestObjMgr::Instance().CreateSSeqLoc(sid)); +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/tabular.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:47: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 108 | auto_ptr m_memGi2GeneFile; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp: In member function 'void blastargs::CheckQueryCoveragePercent::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:3415:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 3415 | auto_ptr args; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 111 | auto_ptr m_memGene2OffsetFile; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::NucleotideBlastChangeQuery::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2238:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 2238 | auto_ptr query( +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 114 | auto_ptr m_memGi2OffsetFile; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2242:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 2242 | auto_ptr subj( +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 117 | auto_ptr m_memGene2GiFile; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::NucleotideBlastChangeSubject::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2263:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 2263 | auto_ptr query( +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:53: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 156 | auto_ptr m_DecompressIStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2267:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 2267 | auto_ptr subj( - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp: In member function 'void blastargs::CheckMaxHspsPerSubject::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:3429:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 3429 | auto_ptr args; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 157 | auto_ptr m_CompressOStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::ProteinBlastMultipleQueries::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2290:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 2290 | auto_ptr sl1(CTestObjMgr::Instance().CreateSSeqLoc(qid)); - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1554 | static auto_ptr m_GeneInfoReader; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2294:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 2294 | auto_ptr sl2(CTestObjMgr::Instance().CreateSSeqLoc(sid)); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 875 | auto_ptr m_DecompressIStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::NucleotideBlastMultipleQueries::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2344:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 2344 | auto_ptr sl1( - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/redoalignment_unit_test.cpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2350:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 2350 | auto_ptr sl2( +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::TblastnOutOfFrame::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2469:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 2469 | auto_ptr query(CTestObjMgr::Instance().CreateSSeqLoc(qid)); +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/tabular.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:47: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 108 | auto_ptr m_memGi2GeneFile; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2470:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 2470 | auto_ptr subj(CTestObjMgr::Instance().CreateSSeqLoc(sid)); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 111 | auto_ptr m_memGene2OffsetFile; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::TblastnOutOfFrame2::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2494:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 2494 | auto_ptr query(CTestObjMgr::Instance().CreateSSeqLoc(qid)); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 114 | auto_ptr m_memGi2OffsetFile; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2495:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 2495 | auto_ptr subj(CTestObjMgr::Instance().CreateSSeqLoc(sid)); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 117 | auto_ptr m_memGene2GiFile; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::BlastxOutOfFrame::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2526:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 2526 | auto_ptr query( +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/psiblast_unit_test.cpp:44: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2528:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 2528 | auto_ptr subj(CTestObjMgr::Instance().CreateSSeqLoc(sid)); - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1554 | static auto_ptr m_GeneInfoReader; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::BlastxOutOfFrame_DifferentFrames::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2552:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 2552 | auto_ptr query( +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:414:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 414 | auto_ptr m_SamFormatter; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2554:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 2554 | auto_ptr subj(CTestObjMgr::Instance().CreateSSeqLoc(sid)); +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:48: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 654 | auto_ptr m_GeneInfoReader; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -65423,106 +65315,157 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::Blastn_QueryBothStrands_SubjBothStrands::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2710:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 2710 | auto_ptr query( +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/build_archive.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/build_archive_unit_test.cpp:52: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 743 | auto_ptr m_ObjectStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2717:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 2717 | auto_ptr subj( - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:52: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::Blastn_QueryBothStrands_SubjPlusStrand::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2733:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 2733 | auto_ptr query( +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/request_result.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/reader_id2_base.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/id2/reader_id2.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_formatter.cpp:45: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2740:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 2740 | auto_ptr subj( +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:53: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 156 | auto_ptr m_DecompressIStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::Blastn_QueryBothStrands_SubjMinusStrand::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2756:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 2756 | auto_ptr query( +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 157 | auto_ptr m_CompressOStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2763:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 2763 | auto_ptr subj( +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blast_scope_src_unit_test.cpp:43: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 875 | auto_ptr m_DecompressIStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::Blastn_QueryPlusStrand_SubjPlusStrand::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2779:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 2779 | auto_ptr query( +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:54: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2786:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 2786 | auto_ptr subj( +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 449 | auto_ptr m_ConfigFile; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::Blastn_QueryPlusStrand_SubjMinusStrand::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2802:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 2802 | auto_ptr query( +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:53: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 65 | auto_ptr m_FileStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2809:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 2809 | auto_ptr subj( +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:450:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 450 | auto_ptr m_Reg; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::Blastn_QueryPlusStrand_SubjBothStrands::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2826:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 2826 | auto_ptr query( +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/prelim_stage.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/local_blast.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastp_app.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2833:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 2833 | auto_ptr subj( +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::Blastn_QueryMinusStrand_SubjMinusStrand::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2849:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 2849 | auto_ptr query( +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 156 | auto_ptr m_DecompressIStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2856:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 2856 | auto_ptr subj( +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 157 | auto_ptr m_CompressOStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::Blastn_QueryMinusStrand_SubjPlusStrand::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2872:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 2872 | auto_ptr query( +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 875 | auto_ptr m_DecompressIStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2879:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 2879 | auto_ptr subj( +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:414:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 414 | auto_ptr m_SamFormatter; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -65550,134 +65493,225 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::Blastn_QueryMinusStrand_SubjBothStrands::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2895:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 2895 | auto_ptr query( +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2902:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 2902 | auto_ptr subj( +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_report.cpp: In member function 'virtual void CBlastReportApp::Init()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_report.cpp:107:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 107 | auto_ptr arg_desc(new CArgDescriptions); | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::Blastn_QueryWhole_SubjInterval::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2917:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 2917 | auto_ptr query(CTestObjMgr::Instance().CreateWholeSSeqLoc(*qid)); +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:48: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 654 | auto_ptr m_GeneInfoReader; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2921:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 2921 | auto_ptr subj( +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blastp_args.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:57: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 156 | auto_ptr m_DecompressIStream; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_formatter.cpp: In member function 'virtual void CBlastFormatterApp::Init()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_formatter.cpp:116:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 116 | auto_ptr arg_desc(new CArgDescriptions); | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::Blastn_QueryInterval_SubjWhole::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2936:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 2936 | auto_ptr query( +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 157 | auto_ptr m_CompressOStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2941:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 2941 | auto_ptr subj(CTestObjMgr::Instance().CreateWholeSSeqLoc(*sid)); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 875 | auto_ptr m_DecompressIStream; | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared h/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:414:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 414 | auto_ptr m_SamFormatter; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 449 | auto_ptr m_ConfigFile; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:450:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 450 | auto_ptr m_Reg; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_async_format.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/blast_format_unit_test.cpp:55: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -ere +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastp_app.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 743 | auto_ptr m_ObjectStream; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/build_archive.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/blast_format_unit_test.cpp:58: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 743 | auto_ptr m_ObjectStream; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::BlastOptionsEquality::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:3231:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 3231 | auto_ptr megablast_options_handle( +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastp_app.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::BlastOptionsInequality::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:3245:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 3245 | auto_ptr blastn_options_handle( +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:414:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 414 | auto_ptr m_SamFormatter; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::DiscontiguousMB::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:3260:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 3260 | auto_ptr query( +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/redoalignment_unit_test.cpp:65: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastp_node.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 743 | auto_ptr m_ObjectStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:3262:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 3262 | auto_ptr subj(CTestObjMgr::Instance().CreateSSeqLoc(sid)); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp: In function 'std::string* blastinput::s_FileContents2String(const char*)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:1669:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1669 | auto_ptr retval(new string); | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::BlastnHumanChrom_MRNA::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:3279:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 3279 | auto_ptr query( +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp: In member function 'void blastinput::ReadAccessionNucleotideIntoBuffer_Single::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:1681:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1681 | auto_ptr user_input(s_FileContents2String(fname)); | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:3282:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 3282 | auto_ptr subj( +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastp_node.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::testOneSubjectResults2CSeqAlign::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:3307:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 3307 | auto_ptr sl( +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp: In member function 'void blastinput::ReadGiNuclWithFlankingSpacesIntoBuffer_Single::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:1735:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1735 | auto_ptr user_input(new string(" 1945386 \n ")); | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::testMultiSeqSearchSymmetry::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:3346:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 3346 | auto_ptr sl( - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp: In member function 'void blastinput::ReadAccessionNuclWithFlankingSpacesIntoBuffer_Single::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:1808:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1808 | auto_ptr user_input(new string(" X65215.1 ")); + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::testInterruptCallbackWithNull::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:3514:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 3514 | auto_ptr sl(CTestObjMgr::Instance().CreateSSeqLoc(id)); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp: In member function 'void blastinput::ReadFastaWithDeflineProteinIntoBuffer_Single::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:1882:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1882 | auto_ptr user_input(s_FileContents2String(fname)); | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::testInterruptCallbackDoNotInterrupt::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:3542:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 3542 | auto_ptr sl(CTestObjMgr::Instance().CreateSSeqLoc(id)); +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidbg.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbimisc.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiexpt.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/tempstr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastn_app.cpp: In member function 'int CBlastnApp::x_RunMTBySplitQuery()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:197:8: warning: this 'if' clause does not guard... [-Wmisleading-indentation] + 197 | do if (NCBI_NS_NCBI::IsVisibleDiagPostLevel(NCBI_NS_NCBI::eDiag_##severity)) \ + | ^~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:200:28: note: in expansion of macro 'SEVERITY_POST' + 200 | #define INFO_POST(message) SEVERITY_POST(Info, message) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastn_app.cpp:320:17: note: in expansion of macro 'INFO_POST' + 320 | INFO_POST("Batch Size: " << batch_size); + | ^~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/redoalignment_unit_test.cpp: In static member function 'static void CRedoAlignmentTestFixture::runRedoAlignmentCoreUnitTest(EBlastProgramType, ncbi::objects::CSeq_id&, ncbi::objects::CSeq_id&, BlastHSPList*, const BlastHSPList*, Int8, ECompoAdjustModes, bool, double, int)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/redoalignment_unit_test.cpp:210:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 210 | auto_ptr qsl(CTestObjMgr::Instance().CreateSSeqLoc(qid)); | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:198:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' + 198 | ERR_POST(severity << message); while(0) + | ^~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:200:28: note: in expansion of macro 'SEVERITY_POST' + 200 | #define INFO_POST(message) SEVERITY_POST(Info, message) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastn_app.cpp:320:17: note: in expansion of macro 'INFO_POST' + 320 | INFO_POST("Batch Size: " << batch_size); + | ^~~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::QueryMaskIgnoredInMiniExtension::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:3602:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 3602 | auto_ptr query(new SSeqLoc(qloc, scope)); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/redoalignment_unit_test.cpp:211:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 211 | auto_ptr ssl(CTestObjMgr::Instance().CreateSSeqLoc(sid)); | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:3603:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 3603 | auto_ptr subject( +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/redoalignment_unit_test.cpp: In member function 'void RedoAlignment::testRedoAlignmentWithCompBasedStatsBadlyBiasedSequence::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/redoalignment_unit_test.cpp:636:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 636 | auto_ptr ssl(CTestObjMgr::Instance().CreateSSeqLoc(subj_id)); | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -65687,6 +65721,17 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 65 | auto_ptr m_FileStream; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -65708,64 +65753,33 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastp_node.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 743 | auto_ptr m_ObjectStream; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:414:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 414 | auto_ptr m_SamFormatter; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blastp_args.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastp_app.cpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 65 | auto_ptr m_FileStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastp_node.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 156 | auto_ptr m_DecompressIStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/prelim_stage.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/local_blast.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastp_app.cpp:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 157 | auto_ptr m_CompressOStream; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 875 | auto_ptr m_DecompressIStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, @@ -65777,23 +65791,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastp_app.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 743 | auto_ptr m_ObjectStream; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastp_app.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/tabular.hpp:41, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:47: @@ -65827,59 +65824,85 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp: In member function 'ncbi::CArgs* blastargs::CString2Args::CreateCArgs(ncbi::blast::CBlastAppArgs&) const': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:3227:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 3227 | auto_ptr arg_desc(args.SetCommandLine()); + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blastp_args.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastp_app.cpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 65 | auto_ptr m_FileStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp: In member function 'void blastargs::PsiBlastAppTestMatrix::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:3289:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 3289 | auto_ptr args(s2a.CreateCArgs(psiblast_args)); | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 156 | auto_ptr m_DecompressIStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp: In member function 'void blastargs::RpsBlastCBS::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:3300:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 3300 | auto_ptr args(s2a.CreateCArgs(rpsblast_args)); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp: In member function 'void blastargs::CheckMutuallyExclusiveOptions::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:3320:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 3320 | auto_ptr args; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp: In member function 'void blastargs::CheckDiscoMegablast::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:3327:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 3327 | auto_ptr args; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 157 | auto_ptr m_CompressOStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp: In member function 'void blastargs::CheckPercentIdentity::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:3351:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 3351 | auto_ptr args; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 875 | auto_ptr m_DecompressIStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp: In member function 'void blastargs::CheckNoGreedyExtension::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:3365:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 3365 | auto_ptr args; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:48: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 654 | auto_ptr m_GeneInfoReader; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:414:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 414 | auto_ptr m_SamFormatter; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 449 | auto_ptr m_ConfigFile; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp: In member function 'void blastargs::CheckCulling::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:3387:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 3387 | auto_ptr args; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp: In member function 'void blastargs::CheckQueryCoveragePercent::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:3415:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 3415 | auto_ptr args; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:450:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 450 | auto_ptr m_Reg; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp: In member function 'void blastargs::CheckMaxHspsPerSubject::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:3429:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 3429 | auto_ptr args; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:48: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 654 | auto_ptr m_GeneInfoReader; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -65936,6 +65959,48 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 449 | auto_ptr m_ConfigFile; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:450:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 450 | auto_ptr m_Reg; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:414:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 414 | auto_ptr m_SamFormatter; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidbg.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbimisc.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiexpt.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/tempstr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastp_app.cpp: In member function 'int CBlastpApp::x_RunMTBySplitQuery()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:197:8: warning: this 'if' clause does not guard... [-Wmisleading-indentation] + 197 | do if (NCBI_NS_NCBI::IsVisibleDiagPostLevel(NCBI_NS_NCBI::eDiag_##severity)) \ + | ^~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:200:28: note: in expansion of macro 'SEVERITY_POST' + 200 | #define INFO_POST(message) SEVERITY_POST(Info, message) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastp_app.cpp:275:17: note: in expansion of macro 'INFO_POST' + 275 | INFO_POST("Batch Size: " << batch_size); + | ^~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:198:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' + 198 | ERR_POST(severity << message); while(0) + | ^~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:200:28: note: in expansion of macro 'SEVERITY_POST' + 200 | #define INFO_POST(message) SEVERITY_POST(Info, message) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastp_app.cpp:275:17: note: in expansion of macro 'INFO_POST' + 275 | INFO_POST("Batch Size: " << batch_size); + | ^~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:53: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] @@ -65962,62 +66027,30 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLASTFORMAT -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=blast_report /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_report.cpp -o blast_report.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie blast_report.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_app_util -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxregexp -lregexp -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o blast_report -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blast_report /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f blast_report /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blast_report -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -cd app/blast/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=blastx LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../core -DNCBI_APP_BUILT_AS=redoalignment_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/redoalignment_unit_test.cpp -o redoalignment_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie redoalignment_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o redoalignment_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f redoalignment_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f redoalignment_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/redoalignment_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -cd app/blast/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=deltablast LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast TMPL=blastx -w -j12 --jobserver-auth=7,8 all -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=magicblast_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/magicblast_unit_test.cpp -o magicblast_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie magicblast_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o magicblast_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f magicblast_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f magicblast_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/magicblast_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -cd app/blast/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=psiblast LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:414:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 414 | auto_ptr m_SamFormatter; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=delta_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/delta_unit_test.cpp -o delta_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie delta_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lseqalign_util -ltest_boost -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o delta_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f delta_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f delta_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/delta_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/blastdb' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I../ -DNCBI_APP_BUILT_AS=bdbloader_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blastdb/bdbloader_unit_test.cpp -o bdbloader_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie bdbloader_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o bdbloader_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f bdbloader_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f bdbloader_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/bdbloader_unit_test +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/blastdb' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/blastdb' +cd app/blast/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=blastx LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast TMPL=blastx -w -j12 --jobserver-auth=7,8 all +make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastx_app.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] @@ -66128,17 +66161,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -cd app/blast/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=rpsblast LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast TMPL=deltablast -w -j12 --jobserver-auth=7,8 all -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastx_node.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] @@ -66249,13 +66271,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast TMPL=psiblast -w -j12 --jobserver-auth=7,8 all In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:41, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:49, @@ -66278,8 +66293,62 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast TMPL=rpsblast -w -j12 --jobserver-auth=7,8 all +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:49, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastx_node.cpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:76: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^~~~~~~~~~~~~~~~~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLASTFORMAT -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=blast_report /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_report.cpp -o blast_report.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie blast_report.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_app_util -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxregexp -lregexp -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o blast_report +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blast_report /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f blast_report /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blast_report +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=magicblast_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/magicblast_unit_test.cpp -o magicblast_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie magicblast_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o magicblast_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f magicblast_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f magicblast_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/magicblast_unit_test +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +cd app/blast/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=deltablast LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +cd app/blast/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=psiblast LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast TMPL=deltablast -w -j12 --jobserver-auth=7,8 all +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast TMPL=psiblast -w -j12 --jobserver-auth=7,8 all make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, @@ -66502,10 +66571,42 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=delta_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/delta_unit_test.cpp -o delta_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie delta_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lseqalign_util -ltest_boost -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o delta_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f delta_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f delta_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/delta_unit_test +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:41, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:49, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastx_node.cpp:40: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/deltablast_app.cpp:45: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:76: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^~~~~~~~~~~~~~~~~~~~~~~ +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +cd app/blast/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=rpsblast LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:49, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/psiblast_app.cpp:45: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:76: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^ @@ -66524,6 +66625,14 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast TMPL=rpsblast -w -j12 --jobserver-auth=7,8 all +make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpsblast_app.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] @@ -66634,41 +66743,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/blastdb' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I../ -DNCBI_APP_BUILT_AS=bdbloader_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blastdb/bdbloader_unit_test.cpp -o bdbloader_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie bdbloader_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o bdbloader_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f bdbloader_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f bdbloader_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/bdbloader_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/blastdb' -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:49, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/deltablast_app.cpp:45: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:76: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:49, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/psiblast_app.cpp:45: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:76: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpsblast_node.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] @@ -66710,22 +66784,7 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ -/build/reproducible-path/ncb/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^~~~~~~~~~~~~~~~~~~~~~~ -i-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' @@ -66794,10 +66853,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/blastdb' -cd app/blast/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=rpstblastn LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:41, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:49, @@ -66843,43 +66898,47 @@ 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=blastn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastn_node.cpp -o blastn_node.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=blastn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastn_app.cpp -o blastn_app.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie blastn_node.o blastn_app.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_app_util -lxformat -lxcleanup -lvalid -lgbseq -lmlacli -lmla -lmedlars -lpubmed -lsubmit -lxregexp -lregexp -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o blastn +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blastn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f blastn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blastn +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +cd app/blast/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=rpstblastn LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:414:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 414 | auto_ptr m_SamFormatter; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast TMPL=rpstblastn -w -j12 --jobserver-auth=7,8 all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../core -DNCBI_APP_BUILT_AS=redoalignment_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/redoalignment_unit_test.cpp -o redoalignment_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie redoalignment_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o redoalignment_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f redoalignment_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f redoalignment_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/redoalignment_unit_test +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +cd app/blast/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=seedtop LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null make[5]: warning: -j12 forced in submake: resetting jobserver mode. -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidbg.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbimisc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiexpt.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/tempstr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastp_app.cpp: In member function 'int CBlastpApp::x_RunMTBySplitQuery()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:197:8: warning: this 'if' clause does not guard... [-Wmisleading-indentation] - 197 | do if (NCBI_NS_NCBI::IsVisibleDiagPostLevel(NCBI_NS_NCBI::eDiag_##severity)) \ - | ^~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:200:28: note: in expansion of macro 'SEVERITY_POST' - 200 | #define INFO_POST(message) SEVERITY_POST(Info, message) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastp_app.cpp:275:17: note: in expansion of macro 'INFO_POST' - 275 | INFO_POST("Batch Size: " << batch_size); - | ^~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:198:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' - 198 | ERR_POST(severity << message); while(0) - | ^~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:200:28: note: in expansion of macro 'SEVERITY_POST' - 200 | #define INFO_POST(message) SEVERITY_POST(Info, message) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastp_app.cpp:275:17: note: in expansion of macro 'INFO_POST' - 275 | INFO_POST("Batch Size: " << batch_size); - | ^~~~~~~~~ +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast TMPL=seedtop -w -j12 --jobserver-auth=7,8 all +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +mat/blast_format_unit_test.cpp -o blast_format_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie seqalignfilter_unit_test.o blastfmtutil_unit_test.o build_archive_unit_test.o vecscreen_run_unit_test.o blast_format_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o blast_format_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blast_format_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f blast_format_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blast_format_unit_test +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/blast_format' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpstblastn_node.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] @@ -66990,6 +67049,10 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/blast_format' +cd app/blast/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=tblastn LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpstblastn_app.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] @@ -67101,49 +67164,17 @@ 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=blastn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastn_node.cpp -o blastn_node.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=blastn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastn_app.cpp -o blastn_app.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie blastn_node.o blastn_app.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_app_util -lxformat -lxcleanup -lvalid -lgbseq -lmlacli -lmla -lmedlars -lpubmed -lsubmit -lxregexp -lregexp -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o blastn -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blastn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f blastn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blastn -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -cd app/blast/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=seedtop LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:49, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpstblastn_node.cpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:76: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^~~~~~~~~~~~~~~~~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast TMPL=seedtop -w -j12 --jobserver-auth=7,8 all +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast TMPL=tblastn -w -j12 --jobserver-auth=7,8 all +make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:41, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:49, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpstblastn_app.cpp:41: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpstblastn_node.cpp:41: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:76: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^ @@ -67162,7 +67193,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/seedtop_app.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] @@ -67273,47 +67303,8 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:49, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/seedtop_app.cpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:76: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^~~~~~~~~~~~~~~~~~~~~~~ -mat/blast_format_unit_test.cpp -o blast_format_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie seqalignfilter_unit_test.o blastfmtutil_unit_test.o build_archive_unit_test.o vecscreen_run_unit_test.o blast_format_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o blast_format_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blast_format_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f blast_format_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blast_format_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/blast_format' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/blast_format' -cd app/blast/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=tblastn LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast TMPL=tblastn -w -j12 --jobserver-auth=7,8 all -make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/tblastn_node.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/tblastn_app.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -67422,8 +67413,30 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:49, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpstblastn_app.cpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:76: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/tblastn_app.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/tblastn_node.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -67532,41 +67545,50 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/prelim_stage.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/local_blast.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastx_app.cpp:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:49, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/seedtop_app.cpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:76: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:49, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/tblastn_app.cpp:42: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:76: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:41, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:49, @@ -67617,35 +67639,19 @@ 65 | template class auto_ptr; | ^~~~~~~~ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLASTFORMAT -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=blast_formatter /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_formatter.cpp -o blast_formatter.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie blast_formatter.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_app_util -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxregexp -lregexp -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o blast_formatter -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blast_formatter /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f blast_formatter /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blast_formatter +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=blastp /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastp_node.cpp -o blastp_node.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=blastp /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastp_app.cpp -o blastp_app.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie blastp_node.o blastp_app.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_app_util -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxregexp -lregexp -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o blastp +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blastp /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f blastp /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blastp make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:49, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/tblastn_app.cpp:42: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:76: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^~~~~~~~~~~~~~~~~~~~~~~ make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' cd app/blast/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=tblastx LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, @@ -67653,7 +67659,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/prelim_stage.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/local_blast.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpsblast_app.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastx_node.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -67672,32 +67678,55 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +make[5]: warning: -j12 forced in submake: resetting jobserver mode. /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 528 | mutable auto_ptr m_AnnotNames; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast TMPL=tblastx -w -j12 --jobserver-auth=7,8 all make[5]: warning: -j12 forced in submake: resetting jobserver mode. -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastx_app.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 743 | auto_ptr m_ObjectStream; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/prelim_stage.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/local_blast.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastx_app.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/tblastx_app.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] @@ -67808,16 +67837,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastx_app.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:41, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:49, @@ -67840,14 +67859,18 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/deltablast_app.cpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 743 | auto_ptr m_ObjectStream; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/prelim_stage.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/local_blast.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastx_node.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/psiblast_app.cpp:37: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -67875,6 +67898,16 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/deltablast_app.cpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, @@ -67882,7 +67915,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/prelim_stage.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/local_blast.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpstblastn_node.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpsblast_app.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -67910,6 +67943,61 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/psiblast_app.cpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastx_node.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 743 | auto_ptr m_ObjectStream; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastx_app.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 743 | auto_ptr m_ObjectStream; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastx_node.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastx_app.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, @@ -67921,15 +68009,9 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=psiblast_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/psiblast_unit_test.cpp -o psiblast_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie psiblast_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lseqalign_util -ltest_boost -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o psiblast_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f psiblast_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f psiblast_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/psiblast_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blastx_args.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastx_app.cpp:39: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/psiblast_args.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/psiblast_app.cpp:41: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 65 | auto_ptr m_FileStream; | ^~~~~~~~ @@ -67948,122 +68030,105 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLASTFORMAT -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=blast_formatter /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_formatter.cpp -o blast_formatter.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie blast_formatter.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_app_util -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxregexp -lregexp -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o blast_formatter +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blast_formatter /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f blast_formatter /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blast_formatter +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 875 | auto_ptr m_DecompressIStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' cd app/blastdb/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=blastdb_aliastool LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/deltablast_args.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/deltablast_app.cpp:42: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 65 | auto_ptr m_FileStream; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 156 | auto_ptr m_DecompressIStream; + | ^~~~~~~~ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpsblast_app.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 743 | auto_ptr m_ObjectStream; - | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/seedtop.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/seedtop_app.cpp:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 157 | auto_ptr m_CompressOStream; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb TMPL=blastdb_aliastool -w -j12 --jobserver-auth=7,8 all +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 875 | auto_ptr m_DecompressIStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb TMPL=blastdb_aliastool -w -j12 --jobserver-auth=7,8 all -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/deltablast_app.cpp:39: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/psiblast_app.cpp:42: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 743 | auto_ptr m_ObjectStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/prelim_stage.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/local_blast.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpsblast_node.cpp:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/tabular.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:47: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 108 | auto_ptr m_memGi2GeneFile; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 111 | auto_ptr m_memGene2OffsetFile; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 114 | auto_ptr m_memGi2OffsetFile; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/deltablast_app.cpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 117 | auto_ptr m_memGene2GiFile; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpsblast_app.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1554 | static auto_ptr m_GeneInfoReader; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -68177,10 +68242,28 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpsblast_app.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 743 | auto_ptr m_ObjectStream; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/seedtop_app.cpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpsblast_app.cpp:38: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ @@ -68194,7 +68277,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/prelim_stage.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/local_blast.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpstblastn_app.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpsblast_node.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -68222,79 +68305,63 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/tabular.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:47: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 108 | auto_ptr m_memGi2GeneFile; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blastx_args.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastx_app.cpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 65 | auto_ptr m_FileStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 111 | auto_ptr m_memGene2OffsetFile; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 156 | auto_ptr m_DecompressIStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 114 | auto_ptr m_memGi2OffsetFile; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 157 | auto_ptr m_CompressOStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 117 | auto_ptr m_memGene2GiFile; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 875 | auto_ptr m_DecompressIStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/tabular.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:47: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 108 | auto_ptr m_memGi2GeneFile; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/psiblast_app.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 111 | auto_ptr m_memGene2OffsetFile; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1554 | static auto_ptr m_GeneInfoReader; - | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 114 | auto_ptr m_memGi2OffsetFile; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 117 | auto_ptr m_memGene2GiFile; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1554 | static auto_ptr m_GeneInfoReader; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -68305,11 +68372,9 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/deltablast_args.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/deltablast_app.cpp:42: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 65 | auto_ptr m_FileStream; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:48: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 654 | auto_ptr m_GeneInfoReader; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -68321,7 +68386,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/prelim_stage.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/local_blast.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/tblastn_node.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpstblastn_node.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -68349,72 +68414,55 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastx_node.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 743 | auto_ptr m_ObjectStream; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 156 | auto_ptr m_DecompressIStream; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 157 | auto_ptr m_CompressOStream; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/tabular.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:47: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 108 | auto_ptr m_memGi2GeneFile; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 875 | auto_ptr m_DecompressIStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 111 | auto_ptr m_memGene2OffsetFile; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpstblastn_node.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 743 | auto_ptr m_ObjectStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 114 | auto_ptr m_memGi2OffsetFile; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastx_node.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 117 | auto_ptr m_memGene2GiFile; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpsblast_node.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 743 | auto_ptr m_ObjectStream; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1554 | static auto_ptr m_GeneInfoReader; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpstblastn_node.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/rpsblast_args.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpsblast_app.cpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 65 | auto_ptr m_FileStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -68431,45 +68479,51 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpsblast_node.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:48: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 654 | auto_ptr m_GeneInfoReader; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 156 | auto_ptr m_DecompressIStream; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/rpsblast_args.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpsblast_app.cpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 65 | auto_ptr m_FileStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 157 | auto_ptr m_CompressOStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 156 | auto_ptr m_DecompressIStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 875 | auto_ptr m_DecompressIStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 157 | auto_ptr m_CompressOStream; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/prelim_stage.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/local_blast.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpstblastn_app.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -68480,7 +68534,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/prelim_stage.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/local_blast.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/tblastn_app.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/tblastn_node.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -68508,106 +68562,128 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 875 | auto_ptr m_DecompressIStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blastp_args.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/seedtop_app.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 65 | auto_ptr m_FileStream; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 156 | auto_ptr m_DecompressIStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 449 | auto_ptr m_ConfigFile; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 157 | auto_ptr m_CompressOStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:450:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 450 | auto_ptr m_Reg; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/psiblast_app.cpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/prelim_stage.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/local_blast.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/tblastn_app.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 875 | auto_ptr m_DecompressIStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/rpstblastn_args.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpstblastn_node.cpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 65 | auto_ptr m_FileStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 449 | auto_ptr m_ConfigFile; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/tabular.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:47: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 108 | auto_ptr m_memGi2GeneFile; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:450:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 450 | auto_ptr m_Reg; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 111 | auto_ptr m_memGene2OffsetFile; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpstblastn_node.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 743 | auto_ptr m_ObjectStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 114 | auto_ptr m_memGi2OffsetFile; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpsblast_node.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 743 | auto_ptr m_ObjectStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 117 | auto_ptr m_memGene2GiFile; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpstblastn_node.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1554 | static auto_ptr m_GeneInfoReader; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpsblast_node.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/tblastn_node.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 743 | auto_ptr m_ObjectStream; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/seedtop.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/seedtop_app.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -68638,25 +68714,14 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 156 | auto_ptr m_DecompressIStream; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 157 | auto_ptr m_CompressOStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -68667,12 +68732,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 875 | auto_ptr m_DecompressIStream; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:48: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 654 | auto_ptr m_GeneInfoReader; @@ -68680,62 +68739,28 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:48: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 654 | auto_ptr m_GeneInfoReader; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:53: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 65 | auto_ptr m_FileStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/prelim_stage.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/local_blast.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/tblastx_app.cpp:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 156 | auto_ptr m_DecompressIStream; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 157 | auto_ptr m_CompressOStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpstblastn_app.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 743 | auto_ptr m_ObjectStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 875 | auto_ptr m_DecompressIStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -68746,85 +68771,64 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/tblastn_node.cpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:414:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 414 | auto_ptr m_SamFormatter; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/rpsblast_args.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpsblast_node.cpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 65 | auto_ptr m_FileStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:414:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 414 | auto_ptr m_SamFormatter; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidbg.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbimisc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiexpt.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/tempstr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastx_app.cpp: In member function 'int CBlastxApp::x_RunMTBySplitQuery()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:197:8: warning: this 'if' clause does not guard... [-Wmisleading-indentation] - 197 | do if (NCBI_NS_NCBI::IsVisibleDiagPostLevel(NCBI_NS_NCBI::eDiag_##severity)) \ - | ^~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:200:28: note: in expansion of macro 'SEVERITY_POST' - 200 | #define INFO_POST(message) SEVERITY_POST(Info, message) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastx_app.cpp:274:17: note: in expansion of macro 'INFO_POST' - 274 | INFO_POST("Batch Size: " << batch_size); - | ^~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:198:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' - 198 | ERR_POST(severity << message); while(0) - | ^~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:200:28: note: in expansion of macro 'SEVERITY_POST' - 200 | #define INFO_POST(message) SEVERITY_POST(Info, message) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastx_app.cpp:274:17: note: in expansion of macro 'INFO_POST' - 274 | INFO_POST("Batch Size: " << batch_size); - | ^~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 156 | auto_ptr m_DecompressIStream; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 157 | auto_ptr m_CompressOStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 449 | auto_ptr m_ConfigFile; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 875 | auto_ptr m_DecompressIStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:450:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 450 | auto_ptr m_Reg; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpstblastn_app.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 449 | auto_ptr m_ConfigFile; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/tblastn_node.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 743 | auto_ptr m_ObjectStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:450:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 450 | auto_ptr m_Reg; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/rpstblastn_args.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpstblastn_node.cpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 65 | auto_ptr m_FileStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -68856,97 +68860,88 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/tblastn_app.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 743 | auto_ptr m_ObjectStream; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 1554 | static auto_ptr m_GeneInfoReader; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 449 | auto_ptr m_ConfigFile; - | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:450:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 450 | auto_ptr m_Reg; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 156 | auto_ptr m_DecompressIStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/tblastn_app.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 743 | auto_ptr m_ObjectStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 157 | auto_ptr m_CompressOStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/tblastx_app.cpp:37: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpstblastn_app.cpp:37: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 743 | auto_ptr m_ObjectStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/tblastx_app.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 875 | auto_ptr m_DecompressIStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/tabular.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:47: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 108 | auto_ptr m_memGi2GeneFile; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:48: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 654 | auto_ptr m_GeneInfoReader; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 111 | auto_ptr m_memGene2OffsetFile; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/rpsblast_args.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpsblast_node.cpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 65 | auto_ptr m_FileStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 114 | auto_ptr m_memGi2OffsetFile; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/tblastn_node.cpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 117 | auto_ptr m_memGene2GiFile; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpstblastn_app.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1554 | static auto_ptr m_GeneInfoReader; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 156 | auto_ptr m_DecompressIStream; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/psiblast_args.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/psiblast_app.cpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 65 | auto_ptr m_FileStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 157 | auto_ptr m_CompressOStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -68961,64 +68956,99 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/tabular.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:47: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 108 | auto_ptr m_memGi2GeneFile; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 875 | auto_ptr m_DecompressIStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 111 | auto_ptr m_memGene2OffsetFile; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/seedtop_app.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 114 | auto_ptr m_memGi2OffsetFile; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 449 | auto_ptr m_ConfigFile; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 117 | auto_ptr m_memGene2GiFile; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:450:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 450 | auto_ptr m_Reg; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 156 | auto_ptr m_DecompressIStream; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/prelim_stage.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/local_blast.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/tblastx_app.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 157 | auto_ptr m_CompressOStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:48: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 654 | auto_ptr m_GeneInfoReader; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 875 | auto_ptr m_DecompressIStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:414:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 414 | auto_ptr m_SamFormatter; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1554 | static auto_ptr m_GeneInfoReader; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidbg.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbimisc.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiexpt.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/tempstr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastx_app.cpp: In member function 'int CBlastxApp::x_RunMTBySplitQuery()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:197:8: warning: this 'if' clause does not guard... [-Wmisleading-indentation] + 197 | do if (NCBI_NS_NCBI::IsVisibleDiagPostLevel(NCBI_NS_NCBI::eDiag_##severity)) \ + | ^~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:200:28: note: in expansion of macro 'SEVERITY_POST' + 200 | #define INFO_POST(message) SEVERITY_POST(Info, message) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastx_app.cpp:274:17: note: in expansion of macro 'INFO_POST' + 274 | INFO_POST("Batch Size: " << batch_size); + | ^~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:198:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' + 198 | ERR_POST(severity << message); while(0) + | ^~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:200:28: note: in expansion of macro 'SEVERITY_POST' + 200 | #define INFO_POST(message) SEVERITY_POST(Info, message) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastx_app.cpp:274:17: note: in expansion of macro 'INFO_POST' + 274 | INFO_POST("Batch Size: " << batch_size); + | ^~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, @@ -69027,9 +69057,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, @@ -69041,81 +69068,64 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/tabular.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:47: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 108 | auto_ptr m_memGi2GeneFile; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 111 | auto_ptr m_memGene2OffsetFile; - | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 114 | auto_ptr m_memGi2OffsetFile; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/tblastn_args.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/tblastn_app.cpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 65 | auto_ptr m_FileStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 117 | auto_ptr m_memGene2GiFile; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 156 | auto_ptr m_DecompressIStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1554 | static auto_ptr m_GeneInfoReader; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:48: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 654 | auto_ptr m_GeneInfoReader; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 157 | auto_ptr m_CompressOStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/psiblast_app.cpp:42: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 743 | auto_ptr m_ObjectStream; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:48: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 654 | auto_ptr m_GeneInfoReader; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/rpstblastn_args.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpstblastn_app.cpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 65 | auto_ptr m_FileStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 449 | auto_ptr m_ConfigFile; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 875 | auto_ptr m_DecompressIStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:450:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 450 | auto_ptr m_Reg; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 156 | auto_ptr m_DecompressIStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=blastp /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastp_node.cpp -o blastp_node.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=blastp /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastp_app.cpp -o blastp_app.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie blastp_node.o blastp_app.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_app_util -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxregexp -lregexp -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o blastp -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blastp /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f blastp /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blastp -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:414:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 414 | auto_ptr m_SamFormatter; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 157 | auto_ptr m_CompressOStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -69131,36 +69141,14 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/rpstblastn_args.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpstblastn_app.cpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 65 | auto_ptr m_FileStream; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -cd app/blastdb/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=blastdb_convert LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 156 | auto_ptr m_DecompressIStream; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 157 | auto_ptr m_CompressOStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 875 | auto_ptr m_DecompressIStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/tblastx_args.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/tblastx_app.cpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 65 | auto_ptr m_FileStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:414:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 414 | auto_ptr m_SamFormatter; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -69171,6 +69159,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 108 | auto_ptr m_memGi2GeneFile; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blastp_args.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/seedtop_app.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 65 | auto_ptr m_FileStream; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -69192,6 +69186,47 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1554 | static auto_ptr m_GeneInfoReader; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdb_aliastool.cpp:46: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 156 | auto_ptr m_DecompressIStream; | ^~~~~~~~ @@ -69207,23 +69242,73 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 875 | auto_ptr m_DecompressIStream; | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=psiblast_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/psiblast_unit_test.cpp -o psiblast_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie psiblast_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lseqalign_util -ltest_boost -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o psiblast_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f psiblast_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f psiblast_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/psiblast_unit_test +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:48: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 654 | auto_ptr m_GeneInfoReader; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 875 | auto_ptr m_DecompressIStream; +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidbg.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbimisc.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiexpt.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/tempstr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpsblast_app.cpp: In member function 'int CRPSBlastApp::x_RunMTBySplitQuery()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:197:8: warning: this 'if' clause does not guard... [-Wmisleading-indentation] + 197 | do if (NCBI_NS_NCBI::IsVisibleDiagPostLevel(NCBI_NS_NCBI::eDiag_##severity)) \ + | ^~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:200:28: note: in expansion of macro 'SEVERITY_POST' + 200 | #define INFO_POST(message) SEVERITY_POST(Info, message) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpsblast_app.cpp:258:9: note: in expansion of macro 'INFO_POST' + 258 | INFO_POST("Batch Size: " << batch_size); + | ^~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:198:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' + 198 | ERR_POST(severity << message); while(0) + | ^~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:200:28: note: in expansion of macro 'SEVERITY_POST' + 200 | #define INFO_POST(message) SEVERITY_POST(Info, message) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpsblast_app.cpp:258:9: note: in expansion of macro 'INFO_POST' + 258 | INFO_POST("Batch Size: " << batch_size); + | ^~~~~~~~~ +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +cd app/blastdb/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=blastdb_convert LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/tabular.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:47: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 108 | auto_ptr m_memGi2GeneFile; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 449 | auto_ptr m_ConfigFile; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 111 | auto_ptr m_memGene2OffsetFile; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:450:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 450 | auto_ptr m_Reg; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 114 | auto_ptr m_memGi2OffsetFile; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 117 | auto_ptr m_memGene2GiFile; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -69234,6 +69319,21 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb TMPL=blastdb_convert -w -j12 --jobserver-auth=7,8 all /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 449 | auto_ptr m_ConfigFile; | ^~~~~~~~ @@ -69246,34 +69346,30 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:414:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 414 | auto_ptr m_SamFormatter; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/tabular.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:47: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 108 | auto_ptr m_memGi2GeneFile; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb TMPL=blastdb_convert -w -j12 --jobserver-auth=7,8 all -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 111 | auto_ptr m_memGene2OffsetFile; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; - | make[5]: warning: -j12 forced in submake: resetting jobserver mode. - ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:48: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 654 | auto_ptr m_GeneInfoReader; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 114 | auto_ptr m_memGi2OffsetFile; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 117 | auto_ptr m_memGene2GiFile; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -69311,32 +69407,25 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/tblastn_args.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/tblastn_app.cpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 65 | auto_ptr m_FileStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1554 | static auto_ptr m_GeneInfoReader; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:48: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 654 | auto_ptr m_GeneInfoReader; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdb_aliastool.cpp:46: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/../blast/blast_app_util.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdb_aliastool.cpp:47: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 65 | auto_ptr m_FileStream; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -69450,45 +69539,31 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/seedtop_app.cpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 156 | auto_ptr m_DecompressIStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 157 | auto_ptr m_CompressOStream; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 875 | auto_ptr m_DecompressIStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_app_util.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/seedtop_app.cpp:42: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/tblastx_app.cpp:37: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 743 | auto_ptr m_ObjectStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:414:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 414 | auto_ptr m_SamFormatter; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:48: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 654 | auto_ptr m_GeneInfoReader; @@ -69496,55 +69571,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 156 | auto_ptr m_DecompressIStream; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 157 | auto_ptr m_CompressOStream; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 875 | auto_ptr m_DecompressIStream; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/seedtop_app.cpp: In member function 'virtual void CSeedTopApp::Init()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/seedtop_app.cpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 114 | auto_ptr arg_desc(new CArgDescriptions); - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidbg.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbimisc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiexpt.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/tempstr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpsblast_app.cpp: In member function 'int CRPSBlastApp::x_RunMTBySplitQuery()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:197:8: warning: this 'if' clause does not guard... [-Wmisleading-indentation] - 197 | do if (NCBI_NS_NCBI::IsVisibleDiagPostLevel(NCBI_NS_NCBI::eDiag_##severity)) \ - | ^~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:200:28: note: in expansion of macro 'SEVERITY_POST' - 200 | #define INFO_POST(message) SEVERITY_POST(Info, message) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpsblast_app.cpp:258:9: note: in expansion of macro 'INFO_POST' - 258 | INFO_POST("Batch Size: " << batch_size); - | ^~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:198:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' - 198 | ERR_POST(severity << message); while(0) - | ^~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:200:28: note: in expansion of macro 'SEVERITY_POST' - 200 | #define INFO_POST(message) SEVERITY_POST(Info, message) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpsblast_app.cpp:258:9: note: in expansion of macro 'INFO_POST' - 258 | INFO_POST("Batch Size: " << batch_size); - | ^~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/tabular.hpp:41, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:47: @@ -69563,29 +69589,19 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 114 | auto_ptr m_memGi2OffsetFile; | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 117 | auto_ptr m_memGene2GiFile; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1554 | static auto_ptr m_GeneInfoReader; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 449 | auto_ptr m_ConfigFile; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/tblastx_app.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:450:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 450 | auto_ptr m_Reg; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/../blast/blast_app_util.hpp:45: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 743 | auto_ptr m_ObjectStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -69602,34 +69618,18 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:48: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 654 | auto_ptr m_GeneInfoReader; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:414:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 414 | auto_ptr m_SamFormatter; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:414:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 414 | auto_ptr m_SamFormatter; - | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 449 | auto_ptr m_ConfigFile; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 117 | auto_ptr m_memGene2GiFile; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:450:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 450 | auto_ptr m_Reg; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1554 | static auto_ptr m_GeneInfoReader; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -69640,14 +69640,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/tabular.hpp:41, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:47: @@ -69672,128 +69664,127 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 117 | auto_ptr m_memGene2GiFile; | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 449 | auto_ptr m_ConfigFile; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/../blast/blast_app_util.hpp:50: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 108 | auto_ptr m_memGi2GeneFile; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:450:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 450 | auto_ptr m_Reg; - | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1554 | static auto_ptr m_GeneInfoReader; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 111 | auto_ptr m_memGene2OffsetFile; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:414:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 414 | auto_ptr m_SamFormatter; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 114 | auto_ptr m_memGi2OffsetFile; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/../blast/blast_app_util.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdb_aliastool.cpp:47: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 65 | auto_ptr m_FileStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 117 | auto_ptr m_memGene2GiFile; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:48: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 654 | auto_ptr m_GeneInfoReader; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1554 | static auto_ptr m_GeneInfoReader; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 156 | auto_ptr m_DecompressIStream; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1554 | static auto_ptr m_GeneInfoReader; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 157 | auto_ptr m_CompressOStream; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:48: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 654 | auto_ptr m_GeneInfoReader; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:53: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 65 | auto_ptr m_FileStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 449 | auto_ptr m_ConfigFile; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 875 | auto_ptr m_DecompressIStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:450:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 450 | auto_ptr m_Reg; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/tabular.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:47: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 108 | auto_ptr m_memGi2GeneFile; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:48: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 654 | auto_ptr m_GeneInfoReader; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 111 | auto_ptr m_memGene2OffsetFile; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 654 | auto_ptr m_GeneInfoReader; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 114 | auto_ptr m_memGi2OffsetFile; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:414:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 414 | auto_ptr m_SamFormatter; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 117 | auto_ptr m_memGene2GiFile; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 449 | auto_ptr m_ConfigFile; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 156 | auto_ptr m_DecompressIStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:450:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 450 | auto_ptr m_Reg; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 157 | auto_ptr m_CompressOStream; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1554 | static auto_ptr m_GeneInfoReader; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 449 | auto_ptr m_ConfigFile; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:414:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 414 | auto_ptr m_SamFormatter; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:450:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 450 | auto_ptr m_Reg; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 875 | auto_ptr m_DecompressIStream; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/tblastx_args.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/tblastx_app.cpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 65 | auto_ptr m_FileStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -69818,46 +69809,20 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 875 | auto_ptr m_DecompressIStream; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:48: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 654 | auto_ptr m_GeneInfoReader; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:414:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 414 | auto_ptr m_SamFormatter; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:414:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 414 | auto_ptr m_SamFormatter; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 449 | auto_ptr m_ConfigFile; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 156 | auto_ptr m_DecompressIStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:450:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 450 | auto_ptr m_Reg; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 157 | auto_ptr m_CompressOStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/../blast/blast_app_util.hpp:45: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 743 | auto_ptr m_ObjectStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 875 | auto_ptr m_DecompressIStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -69874,42 +69839,20 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/../blast/blast_app_util.hpp:50: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 108 | auto_ptr m_memGi2GeneFile; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 111 | auto_ptr m_memGene2OffsetFile; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 114 | auto_ptr m_memGi2OffsetFile; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 875 | auto_ptr m_DecompressIStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 117 | auto_ptr m_memGene2GiFile; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:414:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 414 | auto_ptr m_SamFormatter; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1554 | static auto_ptr m_GeneInfoReader; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 654 | auto_ptr m_GeneInfoReader; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:414:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 414 | auto_ptr m_SamFormatter; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -69981,6 +69924,92 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpstblastn_app.cpp:251:9: note: in expansion of macro 'INFO_POST' 251 | INFO_POST("Batch Size: " << batch_size); | ^~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/tabular.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:47: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 108 | auto_ptr m_memGi2GeneFile; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 111 | auto_ptr m_memGene2OffsetFile; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 114 | auto_ptr m_memGi2OffsetFile; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 117 | auto_ptr m_memGene2GiFile; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1554 | static auto_ptr m_GeneInfoReader; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:414:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 414 | auto_ptr m_SamFormatter; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:48: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 654 | auto_ptr m_GeneInfoReader; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/seedtop_app.cpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_app_util.hpp:45, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/seedtop_app.cpp:42: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 743 | auto_ptr m_ObjectStream; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/seedtop_app.cpp: In member function 'virtual void CSeedTopApp::Init()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/seedtop_app.cpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 114 | auto_ptr arg_desc(new CArgDescriptions); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 449 | auto_ptr m_ConfigFile; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:450:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 450 | auto_ptr m_Reg; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, @@ -70013,6 +70042,12 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:414:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 414 | auto_ptr m_SamFormatter; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] @@ -70021,32 +70056,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=tblastx /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/tblastx_app.cpp -o tblastx_app.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie tblastx_app.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_app_util -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxregexp -lregexp -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o tblastx -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f tblastx /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f tblastx /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/tblastx -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -cd app/blastdb/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=blastdb_path LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=rpsblast /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpsblast_node.cpp -o rpsblast_node.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=rpsblast /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpsblast_app.cpp -o rpsblast_app.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie rpsblast_node.o rpsblast_app.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_app_util -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxregexp -lregexp -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o rpsblast -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f rpsblast /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f rpsblast /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/rpsblast -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb TMPL=blastdb_path -w -j12 --jobserver-auth=7,8 all -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -cd app/blastdb/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=blastdbcheck LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/../blast/blast_app_util.hpp:40, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdb_convert.cpp:49: @@ -70056,8 +70065,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 156 | auto_ptr m_DecompressIStream; | ^~~~~~~~ @@ -70070,19 +70077,87 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=seedtop /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/seedtop_app.cpp -o seedtop_app.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie seedtop_app.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_app_util -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxregexp -lregexp -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o seedtop -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f seedtop /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f seedtop /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/seedtop -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 875 | auto_ptr m_DecompressIStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/../blast/blast_app_util.hpp:45: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 743 | auto_ptr m_ObjectStream; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/../blast/blast_app_util.hpp:50: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 108 | auto_ptr m_memGi2GeneFile; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 111 | auto_ptr m_memGene2OffsetFile; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 114 | auto_ptr m_memGi2OffsetFile; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 117 | auto_ptr m_memGene2GiFile; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1554 | static auto_ptr m_GeneInfoReader; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 654 | auto_ptr m_GeneInfoReader; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=deltablast /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/deltablast_app.cpp -o deltablast_app.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie deltablast_app.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_app_util -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxregexp -lregexp -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o deltablast +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f deltablast /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f deltablast /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/deltablast +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +cd app/blastdb/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=blastdb_path LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb TMPL=blastdb_path -w -j12 --jobserver-auth=7,8 all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=psiblast /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/psiblast_app.cpp -o psiblast_app.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie psiblast_app.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_app_util -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxregexp -lregexp -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o psiblast +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f psiblast /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f psiblast /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/psiblast +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +cd app/blastdb/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=blastdbcheck LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdb_path.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] @@ -70116,7 +70191,14 @@ 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdb_convert.cpp: In member function 'virtual void CBlastdbConvertApp::Init()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdb_convert.cpp:119:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 119 | auto_ptr arg_desc(new CArgDescriptions); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +IMPL() | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) @@ -70193,65 +70275,14 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -cd app/blastdb/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=blastdbcmd LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb TMPL=blastdbcheck -w -j12 --jobserver-auth=7,8 all make[5]: warning: -j12 forced in submake: resetting jobserver mode. -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/../blast/blast_app_util.hpp:45: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 743 | auto_ptr m_ObjectStream; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb TMPL=blastdbcmd -w -j12 --jobserver-auth=7,8 all -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/../blast/blast_app_util.hpp:50: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 108 | auto_ptr m_memGi2GeneFile; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 111 | auto_ptr m_memGene2OffsetFile; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 114 | auto_ptr m_memGi2OffsetFile; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 117 | auto_ptr m_memGene2GiFile; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1554 | static auto_ptr m_GeneInfoReader; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdbcheck.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] @@ -70362,14 +70393,36 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=rpsblast /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpsblast_node.cpp -o rpsblast_node.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=rpsblast /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpsblast_app.cpp -o rpsblast_app.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie rpsblast_node.o rpsblast_app.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_app_util -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxregexp -lregexp -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o rpsblast +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f rpsblast /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f rpsblast /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/rpsblast +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=blastx /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastx_node.cpp -o blastx_node.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=blastx /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastx_app.cpp -o blastx_app.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie blastx_node.o blastx_app.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_app_util -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxregexp -lregexp -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o blastx +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blastx /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f blastx /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blastx +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +cd app/blastdb/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=blastdbcmd LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +cd app/blastdb/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=blastdbcp LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb TMPL=blastdbcmd -w -j12 --jobserver-auth=7,8 all make[5]: warning: -j12 forced in submake: resetting jobserver mode. -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 654 | auto_ptr m_GeneInfoReader; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdbcmd.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] @@ -70480,24 +70533,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdb_convert.cpp: In member function 'virtual void CBlastdbConvertApp::Init()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdb_convert.cpp:119:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 119 | auto_ptr arg_desc(new CArgDescriptions); - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=blastx /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastx_node.cpp -o blastx_node.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=blastx /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastx_app.cpp -o blastx_app.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie blastx_node.o blastx_app.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_app_util -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxregexp -lregexp -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o blastx -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blastx /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f blastx /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blastx -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -cd app/blastdb/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=blastdbcp LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' @@ -70616,30 +70651,98 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdb_path.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/../blast/blast_app_util.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdb_path.cpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 65 | auto_ptr m_FileStream; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=psiblast /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/psiblast_app.cpp -o psiblast_app.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie psiblast_app.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_app_util -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxregexp -lregexp -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o psiblast -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f psiblast /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f psiblast /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/psiblast +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=tblastn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/tblastn_node.cpp -o tblastn_node.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=tblastn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/tblastn_app.cpp -o tblastn_app.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie tblastn_node.o tblastn_app.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_app_util -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxregexp -lregexp -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o tblastn +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f tblastn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f tblastn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/tblastn make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' cd app/blastdb/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=makeblastdb LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' make[4]: warning: -j12 forced in submake: resetting jobserver mode. +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 156 | auto_ptr m_DecompressIStream; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 157 | auto_ptr m_CompressOStream; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 875 | auto_ptr m_DecompressIStream; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb TMPL=makeblastdb -w -j12 --jobserver-auth=7,8 all +make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=deltablast /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/deltablast_app.cpp -o deltablast_app.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie deltablast_app.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_app_util -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxregexp -lregexp -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o deltablast -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f deltablast /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f deltablast /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/deltablast +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=seedtop /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/seedtop_app.cpp -o seedtop_app.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie seedtop_app.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_app_util -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxregexp -lregexp -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o seedtop +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f seedtop /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f seedtop /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/seedtop make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' cd app/blastdb/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=makeprofiledb LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' @@ -70650,6 +70753,22 @@ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb TMPL=makeprofiledb -w -j12 --jobserver-auth=7,8 all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=tblastx /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/tblastx_app.cpp -o tblastx_app.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie tblastx_app.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_app_util -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxregexp -lregexp -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o tblastx +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f tblastx /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f tblastx /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/tblastx +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/../blast/blast_app_util.hpp:45: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 743 | auto_ptr m_ObjectStream; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/makeblastdb.cpp:38: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] @@ -70760,8 +70879,71 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb TMPL=makeprofiledb -w -j12 --jobserver-auth=7,8 all -make[5]: warning: -j12 forced in submake: resetting jobserver mode. +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdbcheck.cpp:44: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/../blast/blast_app_util.hpp:50: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 108 | auto_ptr m_memGi2GeneFile; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 111 | auto_ptr m_memGene2OffsetFile; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 114 | auto_ptr m_memGi2OffsetFile; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 117 | auto_ptr m_memGene2GiFile; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1554 | static auto_ptr m_GeneInfoReader; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/makeprofiledb.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] @@ -70873,151 +71055,104 @@ 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=tblastn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/tblastn_node.cpp -o tblastn_node.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=tblastn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/tblastn_app.cpp -o tblastn_app.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie tblastn_node.o tblastn_app.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_app_util -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxregexp -lregexp -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o tblastn -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f tblastn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f tblastn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/tblastn +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=rpstblastn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpstblastn_node.cpp -o rpstblastn_node.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=rpstblastn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpstblastn_app.cpp -o rpstblastn_app.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie rpstblastn_node.o rpstblastn_app.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_app_util -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxregexp -lregexp -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o rpstblastn +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f rpstblastn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f rpstblastn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/rpstblastn make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdb_path.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 654 | auto_ptr m_GeneInfoReader; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=rpstblastn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpstblastn_node.cpp -o rpstblastn_node.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=rpstblastn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpstblastn_app.cpp -o rpstblastn_app.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie rpstblastn_node.o rpstblastn_app.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_app_util -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxregexp -lregexp -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o rpstblastn -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f rpstblastn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f rpstblastn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/rpstblastn -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=blastdb_aliastool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdb_aliastool.cpp -o blastdb_aliastool.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie blastdb_aliastool.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lwritedb -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o blastdb_aliastool -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blastdb_aliastool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f blastdb_aliastool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blastdb_aliastool -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdbcmd.cpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdb_path.cpp: In member function 'virtual void CBlastDBCmdApp::Init()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdb_path.cpp:73:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 73 | auto_ptr arg_desc(new CArgDescriptions); | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdbcheck.cpp:46: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 108 | auto_ptr m_memGi2GeneFile; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 111 | auto_ptr m_memGene2OffsetFile; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdbcheck.cpp:44: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 114 | auto_ptr m_memGi2OffsetFile; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 117 | auto_ptr m_memGene2GiFile; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1554 | static auto_ptr m_GeneInfoReader; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/../blast/blast_app_util.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdbcheck.cpp:47: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 65 | auto_ptr m_FileStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 156 | auto_ptr m_DecompressIStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 157 | auto_ptr m_CompressOStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/../blast/blast_app_util.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdb_path.cpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 65 | auto_ptr m_FileStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 875 | auto_ptr m_DecompressIStream; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=blastdb_aliastool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdb_aliastool.cpp -o blastdb_aliastool.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie blastdb_aliastool.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lwritedb -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o blastdb_aliastool +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blastdb_aliastool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f blastdb_aliastool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blastdb_aliastool +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/../blast/blast_app_util.hpp:45: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 743 | auto_ptr m_ObjectStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -71030,6 +71165,14 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdbcmd.cpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, @@ -71054,79 +71197,55 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 156 | auto_ptr m_DecompressIStream; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 157 | auto_ptr m_CompressOStream; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 875 | auto_ptr m_DecompressIStream; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdbcheck.cpp:46: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 108 | auto_ptr m_memGi2GeneFile; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 111 | auto_ptr m_memGene2OffsetFile; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 114 | auto_ptr m_memGi2OffsetFile; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 117 | auto_ptr m_memGene2GiFile; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/../blast/blast_app_util.hpp:50: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 654 | auto_ptr m_GeneInfoReader; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1554 | static auto_ptr m_GeneInfoReader; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/../blast/blast_app_util.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdbcheck.cpp:47: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 65 | auto_ptr m_FileStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 156 | auto_ptr m_DecompressIStream; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 157 | auto_ptr m_CompressOStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdbcheck.cpp: In member function 'virtual void CBlastDbCheckApplication::Init()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdbcheck.cpp:147:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 147 | auto_ptr arg_desc(new CArgDescriptions); | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 875 | auto_ptr m_DecompressIStream; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -71143,13 +71262,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/../blast/blast_app_util.hpp:45: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 743 | auto_ptr m_ObjectStream; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 364 | auto_ptr &feat_ci, | ^~~~~~~~ @@ -71162,65 +71274,9 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/../blast/blast_app_util.hpp:50: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 108 | auto_ptr m_memGi2GeneFile; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 111 | auto_ptr m_memGene2OffsetFile; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 114 | auto_ptr m_memGi2OffsetFile; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 117 | auto_ptr m_memGene2GiFile; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1554 | static auto_ptr m_GeneInfoReader; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/../blast/blast_app_util.hpp:45: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 743 | auto_ptr m_ObjectStream; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 654 | auto_ptr m_GeneInfoReader; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/../blast/blast_app_util.hpp:50: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 654 | auto_ptr m_GeneInfoReader; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdbcp.cpp: In member function 'virtual void BlastdbCopyApplication::Init()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdbcp.cpp:107:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 107 | auto_ptr arg_desc(new CArgDescriptions); | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -71245,17 +71301,24 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdb_path.cpp: In member function 'virtual void CBlastDBCmdApp::Init()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdb_path.cpp:73:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 73 | auto_ptr arg_desc(new CArgDescriptions); - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdbcheck.cpp: In member function 'virtual void CBlastDbCheckApplication::Init()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdbcheck.cpp:147:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 147 | auto_ptr arg_desc(new CArgDescriptions); +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=blastdb_convert /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdb_convert.cpp -o blastdb_convert.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie blastdb_convert.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lwritedb -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o blastdb_convert +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blastdb_convert /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f blastdb_convert /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blastdb_convert +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_writer/build_db.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/masked_range_set.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/masked_range_set.cpp:31: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_writer/build_db.hpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -71291,29 +71354,9 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdbcp.cpp: In member function 'virtual void BlastdbCopyApplication::Init()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdbcp.cpp:107:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 107 | auto_ptr arg_desc(new CArgDescriptions); - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_writer/build_db.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/masked_range_set.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/masked_range_set.cpp:31: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_writer/build_db.hpp:37: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 65 | auto_ptr m_FileStream; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/../blast/blast_app_util.hpp:45: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 743 | auto_ptr m_ObjectStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -71339,11 +71382,48 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/makeblastdb.cpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/../blast/blast_app_util.hpp:50: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 108 | auto_ptr m_memGi2GeneFile; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 111 | auto_ptr m_memGene2OffsetFile; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 114 | auto_ptr m_memGi2OffsetFile; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 117 | auto_ptr m_memGene2GiFile; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1554 | static auto_ptr m_GeneInfoReader; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 654 | auto_ptr m_GeneInfoReader; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 65 | auto_ptr m_FileStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -71380,89 +71460,52 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/../blast/blast_app_util.hpp:45: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 743 | auto_ptr m_ObjectStream; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/makeblastdb.cpp:42: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/../blast/blast_app_util.hpp:50: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 108 | auto_ptr m_memGi2GeneFile; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 111 | auto_ptr m_memGene2OffsetFile; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdbcmd.cpp: In member function 'virtual void CBlastDBCmdApp::Init()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdbcmd.cpp:863:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 863 | auto_ptr arg_desc(new CArgDescriptions); | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 114 | auto_ptr m_memGi2OffsetFile; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/makeblastdb.cpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 117 | auto_ptr m_memGene2GiFile; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1554 | static auto_ptr m_GeneInfoReader; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 654 | auto_ptr m_GeneInfoReader; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/makeblastdb.cpp:42: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdbcmd.cpp: In member function 'virtual void CBlastDBCmdApp::Init()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdbcmd.cpp:863:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 863 | auto_ptr arg_desc(new CArgDescriptions); +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/../blast/blast_app_util.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/makeprofiledb.cpp:63: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 65 | auto_ptr m_FileStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=blastdb_convert /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdb_convert.cpp -o blastdb_convert.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie blastdb_convert.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lwritedb -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o blastdb_convert -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blastdb_convert /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f blastdb_convert /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blastdb_convert -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/../blast/blast_app_util.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/makeblastdb.cpp:59: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 156 | auto_ptr m_DecompressIStream; | ^~~~~~~~ @@ -71481,16 +71524,8 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/../blast/blast_app_util.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/makeprofiledb.cpp:63: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 65 | auto_ptr m_FileStream; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/../blast/blast_app_util.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/makeblastdb.cpp:59: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 156 | auto_ptr m_DecompressIStream; | ^~~~~~~~ @@ -71543,6 +71578,19 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1554 | static auto_ptr m_GeneInfoReader; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=blastdb_path /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdb_path.cpp -o blastdb_path.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie blastdb_path.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o blastdb_path +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blastdb_path /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f blastdb_path /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blastdb_path +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/../blast/blast_app_util.hpp:45: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 743 | auto_ptr m_ObjectStream; @@ -71550,9 +71598,10 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1554 | static auto_ptr m_GeneInfoReader; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 654 | auto_ptr m_GeneInfoReader; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -71596,27 +71645,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/makeblastdb.cpp: In member function 'virtual void CMakeBlastDBApp::Init()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/makeblastdb.cpp:210:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 210 | auto_ptr arg_desc(new CArgDescriptions); - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 654 | auto_ptr m_GeneInfoReader; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=blastdb_path /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdb_path.cpp -o blastdb_path.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie blastdb_path.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o blastdb_path -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blastdb_path /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f blastdb_path /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blastdb_path -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/makeprofiledb.cpp: In member function 'void CMakeProfileDBApp::x_SetupArgDescriptions()': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/makeprofiledb.cpp:383:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 383 | auto_ptr arg_desc(new CArgDescriptions); @@ -71649,13 +71677,13 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/makeprofiledb.cpp:1382:25: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'long unsigned int'} [-Wsign-compare] 1382 | if (m_NumOfVols == m_VolNames.size()) { | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=blastdbcp /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdbcp.cpp -o blastdbcp.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie blastdbcp.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lwritedb -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -lxser -lxcgi -lxhtml -lxconnect -lxutil -lxncbi -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o blastdbcp -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blastdbcp /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f blastdbcp /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blastdbcp -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/makeblastdb.cpp: In member function 'virtual void CMakeBlastDBApp::Init()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/makeblastdb.cpp:210:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 210 | auto_ptr arg_desc(new CArgDescriptions); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=blastdbcheck /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdbcheck.cpp -o blastdbcheck.o /usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie blastdbcheck.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o blastdbcheck @@ -71664,10 +71692,10 @@ make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=blastdbcmd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdbcmd.cpp -o blastdbcmd.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie blastdbcmd.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o blastdbcmd -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blastdbcmd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f blastdbcmd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blastdbcmd +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=blastdbcp /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdbcp.cpp -o blastdbcp.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie blastdbcp.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lwritedb -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -lxser -lxcgi -lxhtml -lxconnect -lxutil -lxncbi -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o blastdbcp +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blastdbcp /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f blastdbcp /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blastdbcp make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' @@ -71678,6 +71706,13 @@ make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=blastdbcmd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdbcmd.cpp -o blastdbcmd.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie blastdbcmd.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o blastdbcmd +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blastdbcmd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f blastdbcmd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blastdbcmd +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=makeprofiledb /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/makeprofiledb.cpp -o makeprofiledb.o /usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie makeprofiledb.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lwritedb -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o makeprofiledb /bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f makeprofiledb /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin @@ -73330,12 +73365,12 @@ Testing, please wait... -OK -- [serial/datatool] datatool.sh (real 0.25, user 0.18, sys 0.06) +OK -- [serial/datatool] datatool.sh (real 0.43, user 0.30, sys 0.13) SKP -- [serial/datatool] datatool_xml.sh -OK -- [objtools/blast/gene_info_reader/unit_test] gene_info_unit_test (real 0.02, user 0.01, sys 0.01) -OK -- [algo/blast/proteinkmer/unit_test] proteinkmer_unit_test (real 6.59, user 2.85, sys 1.33) -OK -- [algo/blast/unit_tests/api] blastdiag_unit_test (real 0.02, user 0.02, sys 0.00) -TO -- [algo/blast/unit_tests/api] aascan_unit_test (real 200.13, user 0.12, sys 0.05) +OK -- [objtools/blast/gene_info_reader/unit_test] gene_info_unit_test (real 0.04, user 0.02, sys 0.02) +OK -- [algo/blast/proteinkmer/unit_test] proteinkmer_unit_test (real 8.54, user 3.18, sys 2.04) +OK -- [algo/blast/unit_tests/api] blastdiag_unit_test (real 0.03, user 0.02, sys 0.02) +TO -- [algo/blast/unit_tests/api] aascan_unit_test (real 200.21, user 0.17, sys 0.10) ABS -- [misc/jsonwrapp/test] test_jsonwrapp ABS -- [misc/jsonwrapp/test] test_jsonwrapp10 @@ -73351,120 +73386,120 @@ make[2]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++' c++/BUILD/build/check.sh concat_err cat c++/BUILD/build/check.sh.out_err -TO -- [algo/blast/unit_tests/api] aascan_unit_test (real 200.13, user 0.12, sys 0.05) +TO -- [algo/blast/unit_tests/api] aascan_unit_test (real 200.21, user 0.17, sys 0.10) ====================================================================== aascan_unit_test ====================================================================== -3324041/000/0000/PB 34C7B889660BA461 0001/0001 2024-06-05T07:19:34.649814 infom01-amd64 UNK_CLIENT UNK_SESSION aascan_unit_test start /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api/aascan_unit_test -3324041/000/0000/PB 34C7B889660BA461 0002/0002 2024-06-05T07:19:34.650003 infom01-amd64 UNK_CLIENT UNK_SESSION aascan_unit_test extra ncbi_app_username=pbuilder1&ncbi_app_path=/build/reproducible-path/ncbi-blast%2B-2.12.0%2Bds/c%2B%2B/BUILD/build/algo/blast/unit_tests/api/aascan_unit_test&ncbi_app_build_date=Sep++5+2023+02:40:42&ncbi_app_package_name=blast&ncbi_app_package_version=2.12.0&ncbi_app_package_date=Sep++5+2023+02:40:42&ncbi_app_version=2.12.0 +2236188/000/0000/PB AF281F1C86DCF321 0001/0001 2025-07-09T16:08:50.948915 i-capture-the-hostname UNK_CLIENT UNK_SESSION aascan_unit_test start /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api/aascan_unit_test +2236188/000/0000/PB AF281F1C86DCF321 0002/0002 2025-07-09T16:08:50.949141 i-capture-the-hostname UNK_CLIENT UNK_SESSION aascan_unit_test extra ncbi_app_username=pbuilder2&ncbi_app_path=/build/reproducible-path/ncbi-blast%2B-2.12.0%2Bds/c%2B%2B/BUILD/build/algo/blast/unit_tests/api/aascan_unit_test&ncbi_app_build_date=Sep++5+2023+02:40:42&ncbi_app_package_name=blast&ncbi_app_package_version=2.12.0&ncbi_app_package_date=Sep++5+2023+02:40:42&ncbi_app_version=2.12.0 Running 4 test cases... -3324041/000/0001/RB 34C7B889660BA461 0003/0003 2024-06-05T07:19:34.651800 infom01-amd64 UNK_CLIENT UNK_SESSION aascan_unit_test request-start test_name=ScanOffsetTest&ncbi_app_version=2.12.0 -3324041/000/0001/R 34C7B889660BA461 0004/0004 2024-06-05T07:19:34.652299 infom01-amd64 UNK_CLIENT UNK_SESSION aascan_unit_test extra ncbi_phid=34C7B889660BA4610000000000010001 -3324041/000/0001/R 34C7B889660BA461 0005/0005 2024-06-05T07:19:34.652328 infom01-amd64 UNK_CLIENT UNK_SESSION aascan_unit_test extra issued_subhit=1 -3324041/000/0001/R 34C7B889660BA461 0006/0006 2024-06-05T07:19:34.659313 infom01-amd64 UNK_CLIENT 34C7B889660BA461_0001SID aascan_unit_test extra issued_subhit=2 -3324041/000/0001/R 34C7B889660BA461 0007/0007 2024-06-05T07:19:34.662927 infom01-amd64 UNK_CLIENT 34C7B889660BA461_0001SID aascan_unit_test Error: CONNECT(302.22) "ncbi_priv.h", line 4228: UNK_FUNC --- SSOCK#1000[?]@:443: [SOCK::Connect] Failed SOCK_gethostbyname("www.ncbi.nlm.nih.gov") -3324041/000/0001/R 34C7B889660BA461 0008/0008 2024-06-05T07:19:34.662956 infom01-amd64 UNK_CLIENT 34C7B889660BA461_0001SID aascan_unit_test Error: CONNECT(303.7) "ncbi_priv.h", line 2119: UNK_FUNC --- [URL_Connect; https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=infom01-amd64(127.0.1.1)&platform=x86_64-pc-linux-gnu] Failed to connect: Unknown -3324041/000/0001/R 34C7B889660BA461 0009/0009 2024-06-05T07:19:34.662971 infom01-amd64 UNK_CLIENT 34C7B889660BA461_0001SID aascan_unit_test Error: CONNECT(304.5) "ncbi_priv.h", line 205: UNK_FUNC --- [ID2] Unable to create connection with network dispatcher at "https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=infom01-amd64(127.0.1.1)&platform=x86_64-pc-linux-gnu": Unknown -3324041/000/0001/R 34C7B889660BA461 0010/0010 2024-06-05T07:19:34.662982 infom01-amd64 UNK_CLIENT 34C7B889660BA461_0001SID aascan_unit_test Error: CONNECT(308.5) "ncbi_priv.h", line 102: UNK_FUNC --- [ID2] Service not found -3324041/000/0001/R 34C7B889660BA461 0011/0011 2024-06-05T07:19:34.663029 infom01-amd64 UNK_CLIENT 34C7B889660BA461_0001SID aascan_unit_test Error: CORELIB(315.2) "ncbidiag.hpp", line 123: ncbi::CConn_Streambuf::CConn_Streambuf() --- [CConn_Streambuf::CConn_Streambuf()] NULL connector: Unknown -3324041/000/0001/R 34C7B889660BA461 0012/0012 2024-06-05T07:19:34.663184 infom01-amd64 UNK_CLIENT 34C7B889660BA461_0001SID aascan_unit_test extra issued_subhit=3 -3324041/000/0001/R 34C7B889660BA461 0013/0013 2024-06-05T07:19:34.663401 infom01-amd64 UNK_CLIENT 34C7B889660BA461_0001SID aascan_unit_test extra issued_subhit=4 -3324041/000/0001/R 34C7B889660BA461 0014/0014 2024-06-05T07:19:34.663496 infom01-amd64 UNK_CLIENT 34C7B889660BA461_0001SID aascan_unit_test Error: CONNECT(302.22) "ncbi_priv.h", line 4228: UNK_FUNC --- SSOCK#2000[?]@:443: [SOCK::Connect] Failed SOCK_gethostbyname("www.ncbi.nlm.nih.gov") -3324041/000/0001/R 34C7B889660BA461 0015/0015 2024-06-05T07:19:34.663513 infom01-amd64 UNK_CLIENT 34C7B889660BA461_0001SID aascan_unit_test Error: CONNECT(303.7) "ncbi_priv.h", line 2119: UNK_FUNC --- [URL_Connect; https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=infom01-amd64(127.0.1.1)&platform=x86_64-pc-linux-gnu] Failed to connect: Unknown -3324041/000/0001/R 34C7B889660BA461 0016/0016 2024-06-05T07:19:34.663534 infom01-amd64 UNK_CLIENT 34C7B889660BA461_0001SID aascan_unit_test Error: CONNECT(304.5) "ncbi_priv.h", line 205: UNK_FUNC --- [ID2] Unable to create connection with network dispatcher at "https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=infom01-amd64(127.0.1.1)&platform=x86_64-pc-linux-gnu": Unknown -3324041/000/0001/R 34C7B889660BA461 0017/0017 2024-06-05T07:19:34.663559 infom01-amd64 UNK_CLIENT 34C7B889660BA461_0001SID aascan_unit_test Error: CONNECT(308.5) "ncbi_priv.h", line 102: UNK_FUNC --- [ID2] Service not found -3324041/000/0001/R 34C7B889660BA461 0018/0018 2024-06-05T07:19:34.663569 infom01-amd64 UNK_CLIENT 34C7B889660BA461_0001SID aascan_unit_test Error: CORELIB(315.2) "ncbidiag.hpp", line 123: ncbi::CConn_Streambuf::CConn_Streambuf() --- [CConn_Streambuf::CConn_Streambuf()] NULL connector: Unknown -3324041/000/0001/R 34C7B889660BA461 0019/0019 2024-06-05T07:19:34.663625 infom01-amd64 UNK_CLIENT 34C7B889660BA461_0001SID aascan_unit_test extra issued_subhit=5 -3324041/000/0001/R 34C7B889660BA461 0020/0020 2024-06-05T07:19:35.664166 infom01-amd64 UNK_CLIENT 34C7B889660BA461_0001SID aascan_unit_test extra issued_subhit=6 -3324041/000/0001/R 34C7B889660BA461 0021/0021 2024-06-05T07:19:35.664390 infom01-amd64 UNK_CLIENT 34C7B889660BA461_0001SID aascan_unit_test Error: CONNECT(302.22) "ncbi_priv.h", line 4228: UNK_FUNC --- SSOCK#3000[?]@:443: [SOCK::Connect] Failed SOCK_gethostbyname("www.ncbi.nlm.nih.gov") -3324041/000/0001/R 34C7B889660BA461 0022/0022 2024-06-05T07:19:35.664413 infom01-amd64 UNK_CLIENT 34C7B889660BA461_0001SID aascan_unit_test Error: CONNECT(303.7) "ncbi_priv.h", line 2119: UNK_FUNC --- [URL_Connect; https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=infom01-amd64(127.0.1.1)&platform=x86_64-pc-linux-gnu] Failed to connect: Unknown -3324041/000/0001/R 34C7B889660BA461 0023/0023 2024-06-05T07:19:35.664427 infom01-amd64 UNK_CLIENT 34C7B889660BA461_0001SID aascan_unit_test Error: CONNECT(304.5) "ncbi_priv.h", line 205: UNK_FUNC --- [ID2] Unable to create connection with network dispatcher at "https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=infom01-amd64(127.0.1.1)&platform=x86_64-pc-linux-gnu": Unknown -3324041/000/0001/R 34C7B889660BA461 0024/0024 2024-06-05T07:19:35.664437 infom01-amd64 UNK_CLIENT 34C7B889660BA461_0001SID aascan_unit_test Error: CONNECT(308.5) "ncbi_priv.h", line 102: UNK_FUNC --- [ID2] Service not found -3324041/000/0001/R 34C7B889660BA461 0025/0025 2024-06-05T07:19:35.664449 infom01-amd64 UNK_CLIENT 34C7B889660BA461_0001SID aascan_unit_test Error: CORELIB(315.2) "ncbidiag.hpp", line 123: ncbi::CConn_Streambuf::CConn_Streambuf() --- [CConn_Streambuf::CConn_Streambuf()] NULL connector: Unknown -3324041/000/0001/R 34C7B889660BA461 0026/0026 2024-06-05T07:19:35.664596 infom01-amd64 UNK_CLIENT 34C7B889660BA461_0001SID aascan_unit_test extra issued_subhit=7 -3324041/000/0001/R 34C7B889660BA461 0027/0027 2024-06-05T07:19:38.165186 infom01-amd64 UNK_CLIENT 34C7B889660BA461_0001SID aascan_unit_test extra issued_subhit=8 -3324041/000/0001/R 34C7B889660BA461 0028/0028 2024-06-05T07:19:38.165405 infom01-amd64 UNK_CLIENT 34C7B889660BA461_0001SID aascan_unit_test Error: CONNECT(302.22) "ncbi_priv.h", line 4228: UNK_FUNC --- SSOCK#4000[?]@:443: [SOCK::Connect] Failed SOCK_gethostbyname("www.ncbi.nlm.nih.gov") -3324041/000/0001/R 34C7B889660BA461 0029/0029 2024-06-05T07:19:38.165426 infom01-amd64 UNK_CLIENT 34C7B889660BA461_0001SID aascan_unit_test Error: CONNECT(303.7) "ncbi_priv.h", line 2119: UNK_FUNC --- [URL_Connect; https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=infom01-amd64(127.0.1.1)&platform=x86_64-pc-linux-gnu] Failed to connect: Unknown -3324041/000/0001/R 34C7B889660BA461 0030/0030 2024-06-05T07:19:38.165440 infom01-amd64 UNK_CLIENT 34C7B889660BA461_0001SID aascan_unit_test Error: CONNECT(304.5) "ncbi_priv.h", line 205: UNK_FUNC --- [ID2] Unable to create connection with network dispatcher at "https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=infom01-amd64(127.0.1.1)&platform=x86_64-pc-linux-gnu": Unknown -3324041/000/0001/R 34C7B889660BA461 0031/0031 2024-06-05T07:19:38.165462 infom01-amd64 UNK_CLIENT 34C7B889660BA461_0001SID aascan_unit_test Error: CONNECT(308.5) "ncbi_priv.h", line 102: UNK_FUNC --- [ID2] Service not found -3324041/000/0001/R 34C7B889660BA461 0032/0032 2024-06-05T07:19:38.165474 infom01-amd64 UNK_CLIENT 34C7B889660BA461_0001SID aascan_unit_test Error: CORELIB(315.2) "ncbidiag.hpp", line 123: ncbi::CConn_Streambuf::CConn_Streambuf() --- [CConn_Streambuf::CConn_Streambuf()] NULL connector: Unknown -3324041/000/0001/R 34C7B889660BA461 0033/0033 2024-06-05T07:19:38.165601 infom01-amd64 UNK_CLIENT 34C7B889660BA461_0001SID aascan_unit_test extra issued_subhit=9 -3324041/000/0001/R 34C7B889660BA461 0034/0034 2024-06-05T07:19:42.916080 infom01-amd64 UNK_CLIENT 34C7B889660BA461_0001SID aascan_unit_test extra issued_subhit=10 -3324041/000/0001/R 34C7B889660BA461 0035/0035 2024-06-05T07:19:42.916298 infom01-amd64 UNK_CLIENT 34C7B889660BA461_0001SID aascan_unit_test Error: CONNECT(302.22) "ncbi_priv.h", line 4228: UNK_FUNC --- SSOCK#5000[?]@:443: [SOCK::Connect] Failed SOCK_gethostbyname("www.ncbi.nlm.nih.gov") -3324041/000/0001/R 34C7B889660BA461 0036/0036 2024-06-05T07:19:42.916322 infom01-amd64 UNK_CLIENT 34C7B889660BA461_0001SID aascan_unit_test Error: CONNECT(303.7) "ncbi_priv.h", line 2119: UNK_FUNC --- [URL_Connect; https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=infom01-amd64(127.0.1.1)&platform=x86_64-pc-linux-gnu] Failed to connect: Unknown -3324041/000/0001/R 34C7B889660BA461 0037/0037 2024-06-05T07:19:42.916337 infom01-amd64 UNK_CLIENT 34C7B889660BA461_0001SID aascan_unit_test Error: CONNECT(304.5) "ncbi_priv.h", line 205: UNK_FUNC --- [ID2] Unable to create connection with network dispatcher at "https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=infom01-amd64(127.0.1.1)&platform=x86_64-pc-linux-gnu": Unknown -3324041/000/0001/R 34C7B889660BA461 0038/0038 2024-06-05T07:19:42.916348 infom01-amd64 UNK_CLIENT 34C7B889660BA461_0001SID aascan_unit_test Error: CONNECT(308.5) "ncbi_priv.h", line 102: UNK_FUNC --- [ID2] Service not found -3324041/000/0001/R 34C7B889660BA461 0039/0039 2024-06-05T07:19:42.916360 infom01-amd64 UNK_CLIENT 34C7B889660BA461_0001SID aascan_unit_test Error: CORELIB(315.2) "ncbidiag.hpp", line 123: ncbi::CConn_Streambuf::CConn_Streambuf() --- [CConn_Streambuf::CConn_Streambuf()] NULL connector: Unknown -3324041/000/0001/R 34C7B889660BA461 0040/0040 2024-06-05T07:19:42.916575 infom01-amd64 UNK_CLIENT 34C7B889660BA461_0001SID aascan_unit_test extra issued_subhit=11 -3324041/000/0001/R 34C7B889660BA461 0041/0041 2024-06-05T07:19:51.042108 infom01-amd64 UNK_CLIENT 34C7B889660BA461_0001SID aascan_unit_test extra issued_subhit=12 -3324041/000/0001/R 34C7B889660BA461 0042/0042 2024-06-05T07:19:51.042302 infom01-amd64 UNK_CLIENT 34C7B889660BA461_0001SID aascan_unit_test Error: CONNECT(302.22) "ncbi_priv.h", line 4228: UNK_FUNC --- SSOCK#6000[?]@:443: [SOCK::Connect] Failed SOCK_gethostbyname("www.ncbi.nlm.nih.gov") -3324041/000/0001/R 34C7B889660BA461 0043/0043 2024-06-05T07:19:51.042325 infom01-amd64 UNK_CLIENT 34C7B889660BA461_0001SID aascan_unit_test Error: CONNECT(303.7) "ncbi_priv.h", line 2119: UNK_FUNC --- [URL_Connect; https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=infom01-amd64(127.0.1.1)&platform=x86_64-pc-linux-gnu] Failed to connect: Unknown -3324041/000/0001/R 34C7B889660BA461 0044/0044 2024-06-05T07:19:51.042338 infom01-amd64 UNK_CLIENT 34C7B889660BA461_0001SID aascan_unit_test Error: CONNECT(304.5) "ncbi_priv.h", line 205: UNK_FUNC --- [ID2] Unable to create connection with network dispatcher at "https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=infom01-amd64(127.0.1.1)&platform=x86_64-pc-linux-gnu": Unknown -3324041/000/0001/R 34C7B889660BA461 0045/0045 2024-06-05T07:19:51.042358 infom01-amd64 UNK_CLIENT 34C7B889660BA461_0001SID aascan_unit_test Error: CONNECT(308.5) "ncbi_priv.h", line 102: UNK_FUNC --- [ID2] Service not found -3324041/000/0001/R 34C7B889660BA461 0046/0046 2024-06-05T07:19:51.042371 infom01-amd64 UNK_CLIENT 34C7B889660BA461_0001SID aascan_unit_test Error: CORELIB(315.2) "ncbidiag.hpp", line 123: ncbi::CConn_Streambuf::CConn_Streambuf() --- [CConn_Streambuf::CConn_Streambuf()] NULL connector: Unknown -3324041/000/0001/R 34C7B889660BA461 0047/0047 2024-06-05T07:19:51.042551 infom01-amd64 UNK_CLIENT 34C7B889660BA461_0001SID aascan_unit_test extra issued_subhit=13 -3324041/000/0001/R 34C7B889660BA461 0048/0048 2024-06-05T07:20:04.230531 infom01-amd64 UNK_CLIENT 34C7B889660BA461_0001SID aascan_unit_test extra issued_subhit=14 -3324041/000/0001/R 34C7B889660BA461 0049/0049 2024-06-05T07:20:04.230708 infom01-amd64 UNK_CLIENT 34C7B889660BA461_0001SID aascan_unit_test Error: CONNECT(302.22) "ncbi_priv.h", line 4228: UNK_FUNC --- SSOCK#7000[?]@:443: [SOCK::Connect] Failed SOCK_gethostbyname("www.ncbi.nlm.nih.gov") -3324041/000/0001/R 34C7B889660BA461 0050/0050 2024-06-05T07:20:04.230733 infom01-amd64 UNK_CLIENT 34C7B889660BA461_0001SID aascan_unit_test Error: CONNECT(303.7) "ncbi_priv.h", line 2119: UNK_FUNC --- [URL_Connect; https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=infom01-amd64(127.0.1.1)&platform=x86_64-pc-linux-gnu] Failed to connect: Unknown -3324041/000/0001/R 34C7B889660BA461 0051/0051 2024-06-05T07:20:04.230747 infom01-amd64 UNK_CLIENT 34C7B889660BA461_0001SID aascan_unit_test Error: CONNECT(304.5) "ncbi_priv.h", line 205: UNK_FUNC --- [ID2] Unable to create connection with network dispatcher at "https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=infom01-amd64(127.0.1.1)&platform=x86_64-pc-linux-gnu": Unknown -3324041/000/0001/R 34C7B889660BA461 0052/0052 2024-06-05T07:20:04.230758 infom01-amd64 UNK_CLIENT 34C7B889660BA461_0001SID aascan_unit_test Error: CONNECT(308.5) "ncbi_priv.h", line 102: UNK_FUNC --- [ID2] Service not found -3324041/000/0001/R 34C7B889660BA461 0053/0053 2024-06-05T07:20:04.230770 infom01-amd64 UNK_CLIENT 34C7B889660BA461_0001SID aascan_unit_test Error: CORELIB(315.2) "ncbidiag.hpp", line 123: ncbi::CConn_Streambuf::CConn_Streambuf() --- [CConn_Streambuf::CConn_Streambuf()] NULL connector: Unknown -3324041/000/0001/R 34C7B889660BA461 0054/0054 2024-06-05T07:20:04.230899 infom01-amd64 UNK_CLIENT 34C7B889660BA461_0001SID aascan_unit_test extra issued_subhit=15 -3324041/000/0001/R 34C7B889660BA461 0055/0055 2024-06-05T07:20:25.012643 infom01-amd64 UNK_CLIENT 34C7B889660BA461_0001SID aascan_unit_test extra issued_subhit=16 -3324041/000/0001/R 34C7B889660BA461 0056/0056 2024-06-05T07:20:25.012857 infom01-amd64 UNK_CLIENT 34C7B889660BA461_0001SID aascan_unit_test Error: CONNECT(302.22) "ncbi_priv.h", line 4228: UNK_FUNC --- SSOCK#8000[?]@:443: [SOCK::Connect] Failed SOCK_gethostbyname("www.ncbi.nlm.nih.gov") -3324041/000/0001/R 34C7B889660BA461 0057/0057 2024-06-05T07:20:25.012881 infom01-amd64 UNK_CLIENT 34C7B889660BA461_0001SID aascan_unit_test Error: CONNECT(303.7) "ncbi_priv.h", line 2119: UNK_FUNC --- [URL_Connect; https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=infom01-amd64(127.0.1.1)&platform=x86_64-pc-linux-gnu] Failed to connect: Unknown -3324041/000/0001/R 34C7B889660BA461 0058/0058 2024-06-05T07:20:25.012896 infom01-amd64 UNK_CLIENT 34C7B889660BA461_0001SID aascan_unit_test Error: CONNECT(304.5) "ncbi_priv.h", line 205: UNK_FUNC --- [ID2] Unable to create connection with network dispatcher at "https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=infom01-amd64(127.0.1.1)&platform=x86_64-pc-linux-gnu": Unknown -3324041/000/0001/R 34C7B889660BA461 0059/0059 2024-06-05T07:20:25.012907 infom01-amd64 UNK_CLIENT 34C7B889660BA461_0001SID aascan_unit_test Error: CONNECT(308.5) "ncbi_priv.h", line 102: UNK_FUNC --- [ID2] Service not found -3324041/000/0001/R 34C7B889660BA461 0060/0060 2024-06-05T07:20:25.012942 infom01-amd64 UNK_CLIENT 34C7B889660BA461_0001SID aascan_unit_test Error: CORELIB(315.2) "ncbidiag.hpp", line 123: ncbi::CConn_Streambuf::CConn_Streambuf() --- [CConn_Streambuf::CConn_Streambuf()] NULL connector: Unknown -3324041/000/0001/R 34C7B889660BA461 0061/0061 2024-06-05T07:20:25.013088 infom01-amd64 UNK_CLIENT 34C7B889660BA461_0001SID aascan_unit_test extra issued_subhit=17 -3324041/000/0001/R 34C7B889660BA461 0062/0062 2024-06-05T07:20:55.013754 infom01-amd64 UNK_CLIENT 34C7B889660BA461_0001SID aascan_unit_test extra issued_subhit=18 -3324041/000/0001/R 34C7B889660BA461 0063/0063 2024-06-05T07:20:55.014070 infom01-amd64 UNK_CLIENT 34C7B889660BA461_0001SID aascan_unit_test Error: CONNECT(302.22) "ncbi_priv.h", line 4228: UNK_FUNC --- SSOCK#9000[?]@:443: [SOCK::Connect] Failed SOCK_gethostbyname("www.ncbi.nlm.nih.gov") -3324041/000/0001/R 34C7B889660BA461 0064/0064 2024-06-05T07:20:55.014104 infom01-amd64 UNK_CLIENT 34C7B889660BA461_0001SID aascan_unit_test Error: CONNECT(303.7) "ncbi_priv.h", line 2119: UNK_FUNC --- [URL_Connect; https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=infom01-amd64(127.0.1.1)&platform=x86_64-pc-linux-gnu] Failed to connect: Unknown -3324041/000/0001/R 34C7B889660BA461 0065/0065 2024-06-05T07:20:55.014126 infom01-amd64 UNK_CLIENT 34C7B889660BA461_0001SID aascan_unit_test Error: CONNECT(304.5) "ncbi_priv.h", line 205: UNK_FUNC --- [ID2] Unable to create connection with network dispatcher at "https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=infom01-amd64(127.0.1.1)&platform=x86_64-pc-linux-gnu": Unknown -3324041/000/0001/R 34C7B889660BA461 0066/0066 2024-06-05T07:20:55.014139 infom01-amd64 UNK_CLIENT 34C7B889660BA461_0001SID aascan_unit_test Error: CONNECT(308.5) "ncbi_priv.h", line 102: UNK_FUNC --- [ID2] Service not found -3324041/000/0001/R 34C7B889660BA461 0067/0067 2024-06-05T07:20:55.014153 infom01-amd64 UNK_CLIENT 34C7B889660BA461_0001SID aascan_unit_test Error: CORELIB(315.2) "ncbidiag.hpp", line 123: ncbi::CConn_Streambuf::CConn_Streambuf() --- [CConn_Streambuf::CConn_Streambuf()] NULL connector: Unknown -3324041/000/0001/R 34C7B889660BA461 0068/0068 2024-06-05T07:20:55.014356 infom01-amd64 UNK_CLIENT 34C7B889660BA461_0001SID aascan_unit_test extra issued_subhit=19 -3324041/000/0001/R 34C7B889660BA461 0069/0069 2024-06-05T07:21:25.015002 infom01-amd64 UNK_CLIENT 34C7B889660BA461_0001SID aascan_unit_test extra issued_subhit=20 -3324041/000/0001/R 34C7B889660BA461 0070/0070 2024-06-05T07:21:25.015316 infom01-amd64 UNK_CLIENT 34C7B889660BA461_0001SID aascan_unit_test Error: CONNECT(302.22) "ncbi_priv.h", line 4228: UNK_FUNC --- SSOCK#10000[?]@:443: [SOCK::Connect] Failed SOCK_gethostbyname("www.ncbi.nlm.nih.gov") -3324041/000/0001/R 34C7B889660BA461 0071/0071 2024-06-05T07:21:25.015345 infom01-amd64 UNK_CLIENT 34C7B889660BA461_0001SID aascan_unit_test Error: CONNECT(303.7) "ncbi_priv.h", line 2119: UNK_FUNC --- [URL_Connect; https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=infom01-amd64(127.0.1.1)&platform=x86_64-pc-linux-gnu] Failed to connect: Unknown -3324041/000/0001/R 34C7B889660BA461 0072/0072 2024-06-05T07:21:25.015362 infom01-amd64 UNK_CLIENT 34C7B889660BA461_0001SID aascan_unit_test Error: CONNECT(304.5) "ncbi_priv.h", line 205: UNK_FUNC --- [ID2] Unable to create connection with network dispatcher at "https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=infom01-amd64(127.0.1.1)&platform=x86_64-pc-linux-gnu": Unknown -3324041/000/0001/R 34C7B889660BA461 0073/0073 2024-06-05T07:21:25.015375 infom01-amd64 UNK_CLIENT 34C7B889660BA461_0001SID aascan_unit_test Error: CONNECT(308.5) "ncbi_priv.h", line 102: UNK_FUNC --- [ID2] Service not found -3324041/000/0001/R 34C7B889660BA461 0074/0074 2024-06-05T07:21:25.015410 infom01-amd64 UNK_CLIENT 34C7B889660BA461_0001SID aascan_unit_test Error: CORELIB(315.2) "ncbidiag.hpp", line 123: ncbi::CConn_Streambuf::CConn_Streambuf() --- [CConn_Streambuf::CConn_Streambuf()] NULL connector: Unknown -3324041/000/0001/RE 34C7B889660BA461 0075/0075 2024-06-05T07:21:25.015842 infom01-amd64 UNK_CLIENT 34C7B889660BA461_0001SID aascan_unit_test request-stop 500 110.364037036 0 0 +2236188/000/0001/RB AF281F1C86DCF321 0003/0003 2025-07-09T16:08:50.952063 i-capture-the-hostname UNK_CLIENT UNK_SESSION aascan_unit_test request-start test_name=ScanOffsetTest&ncbi_app_version=2.12.0 +2236188/000/0001/R AF281F1C86DCF321 0004/0004 2025-07-09T16:08:50.952699 i-capture-the-hostname UNK_CLIENT UNK_SESSION aascan_unit_test extra ncbi_phid=AF281F1C86DCF3210000000000010001 +2236188/000/0001/R AF281F1C86DCF321 0005/0005 2025-07-09T16:08:50.952729 i-capture-the-hostname UNK_CLIENT UNK_SESSION aascan_unit_test extra issued_subhit=1 +2236188/000/0001/R AF281F1C86DCF321 0006/0006 2025-07-09T16:08:50.956444 i-capture-the-hostname UNK_CLIENT AF281F1C86DCF321_0001SID aascan_unit_test extra issued_subhit=2 +2236188/000/0001/R AF281F1C86DCF321 0007/0007 2025-07-09T16:08:50.958095 i-capture-the-hostname UNK_CLIENT AF281F1C86DCF321_0001SID aascan_unit_test Error: CONNECT(302.22) "ncbi_priv.h", line 4228: UNK_FUNC --- SSOCK#1000[?]@:443: [SOCK::Connect] Failed SOCK_gethostbyname("www.ncbi.nlm.nih.gov") +2236188/000/0001/R AF281F1C86DCF321 0008/0008 2025-07-09T16:08:50.958121 i-capture-the-hostname UNK_CLIENT AF281F1C86DCF321_0001SID aascan_unit_test Error: CONNECT(303.7) "ncbi_priv.h", line 2119: UNK_FUNC --- [URL_Connect; https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=i-capture-the-hostname(127.0.1.1)&platform=x86_64-pc-linux-gnu] Failed to connect: Unknown +2236188/000/0001/R AF281F1C86DCF321 0009/0009 2025-07-09T16:08:50.958141 i-capture-the-hostname UNK_CLIENT AF281F1C86DCF321_0001SID aascan_unit_test Error: CONNECT(304.5) "ncbi_priv.h", line 205: UNK_FUNC --- [ID2] Unable to create connection with network dispatcher at "https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=i-capture-the-hostname(127.0.1.1)&platform=x86_64-pc-linux-gnu": Unknown +2236188/000/0001/R AF281F1C86DCF321 0010/0010 2025-07-09T16:08:50.958153 i-capture-the-hostname UNK_CLIENT AF281F1C86DCF321_0001SID aascan_unit_test Error: CONNECT(308.5) "ncbi_priv.h", line 102: UNK_FUNC --- [ID2] Service not found +2236188/000/0001/R AF281F1C86DCF321 0011/0011 2025-07-09T16:08:50.958165 i-capture-the-hostname UNK_CLIENT AF281F1C86DCF321_0001SID aascan_unit_test Error: CORELIB(315.2) "ncbidiag.hpp", line 123: ncbi::CConn_Streambuf::CConn_Streambuf() --- [CConn_Streambuf::CConn_Streambuf()] NULL connector: Unknown +2236188/000/0001/R AF281F1C86DCF321 0012/0012 2025-07-09T16:08:50.958350 i-capture-the-hostname UNK_CLIENT AF281F1C86DCF321_0001SID aascan_unit_test extra issued_subhit=3 +2236188/000/0001/R AF281F1C86DCF321 0013/0013 2025-07-09T16:08:50.958626 i-capture-the-hostname UNK_CLIENT AF281F1C86DCF321_0001SID aascan_unit_test extra issued_subhit=4 +2236188/000/0001/R AF281F1C86DCF321 0014/0014 2025-07-09T16:08:50.958733 i-capture-the-hostname UNK_CLIENT AF281F1C86DCF321_0001SID aascan_unit_test Error: CONNECT(302.22) "ncbi_priv.h", line 4228: UNK_FUNC --- SSOCK#2000[?]@:443: [SOCK::Connect] Failed SOCK_gethostbyname("www.ncbi.nlm.nih.gov") +2236188/000/0001/R AF281F1C86DCF321 0015/0015 2025-07-09T16:08:50.958749 i-capture-the-hostname UNK_CLIENT AF281F1C86DCF321_0001SID aascan_unit_test Error: CONNECT(303.7) "ncbi_priv.h", line 2119: UNK_FUNC --- [URL_Connect; https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=i-capture-the-hostname(127.0.1.1)&platform=x86_64-pc-linux-gnu] Failed to connect: Unknown +2236188/000/0001/R AF281F1C86DCF321 0016/0016 2025-07-09T16:08:50.958772 i-capture-the-hostname UNK_CLIENT AF281F1C86DCF321_0001SID aascan_unit_test Error: CONNECT(304.5) "ncbi_priv.h", line 205: UNK_FUNC --- [ID2] Unable to create connection with network dispatcher at "https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=i-capture-the-hostname(127.0.1.1)&platform=x86_64-pc-linux-gnu": Unknown +2236188/000/0001/R AF281F1C86DCF321 0017/0017 2025-07-09T16:08:50.958783 i-capture-the-hostname UNK_CLIENT AF281F1C86DCF321_0001SID aascan_unit_test Error: CONNECT(308.5) "ncbi_priv.h", line 102: UNK_FUNC --- [ID2] Service not found +2236188/000/0001/R AF281F1C86DCF321 0018/0018 2025-07-09T16:08:50.958792 i-capture-the-hostname UNK_CLIENT AF281F1C86DCF321_0001SID aascan_unit_test Error: CORELIB(315.2) "ncbidiag.hpp", line 123: ncbi::CConn_Streambuf::CConn_Streambuf() --- [CConn_Streambuf::CConn_Streambuf()] NULL connector: Unknown +2236188/000/0001/R AF281F1C86DCF321 0019/0019 2025-07-09T16:08:50.958849 i-capture-the-hostname UNK_CLIENT AF281F1C86DCF321_0001SID aascan_unit_test extra issued_subhit=5 +2236188/000/0001/R AF281F1C86DCF321 0020/0020 2025-07-09T16:08:51.959363 i-capture-the-hostname UNK_CLIENT AF281F1C86DCF321_0001SID aascan_unit_test extra issued_subhit=6 +2236188/000/0001/R AF281F1C86DCF321 0021/0021 2025-07-09T16:08:51.959600 i-capture-the-hostname UNK_CLIENT AF281F1C86DCF321_0001SID aascan_unit_test Error: CONNECT(302.22) "ncbi_priv.h", line 4228: UNK_FUNC --- SSOCK#3000[?]@:443: [SOCK::Connect] Failed SOCK_gethostbyname("www.ncbi.nlm.nih.gov") +2236188/000/0001/R AF281F1C86DCF321 0022/0022 2025-07-09T16:08:51.959623 i-capture-the-hostname UNK_CLIENT AF281F1C86DCF321_0001SID aascan_unit_test Error: CONNECT(303.7) "ncbi_priv.h", line 2119: UNK_FUNC --- [URL_Connect; https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=i-capture-the-hostname(127.0.1.1)&platform=x86_64-pc-linux-gnu] Failed to connect: Unknown +2236188/000/0001/R AF281F1C86DCF321 0023/0023 2025-07-09T16:08:51.959638 i-capture-the-hostname UNK_CLIENT AF281F1C86DCF321_0001SID aascan_unit_test Error: CONNECT(304.5) "ncbi_priv.h", line 205: UNK_FUNC --- [ID2] Unable to create connection with network dispatcher at "https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=i-capture-the-hostname(127.0.1.1)&platform=x86_64-pc-linux-gnu": Unknown +2236188/000/0001/R AF281F1C86DCF321 0024/0024 2025-07-09T16:08:51.959650 i-capture-the-hostname UNK_CLIENT AF281F1C86DCF321_0001SID aascan_unit_test Error: CONNECT(308.5) "ncbi_priv.h", line 102: UNK_FUNC --- [ID2] Service not found +2236188/000/0001/R AF281F1C86DCF321 0025/0025 2025-07-09T16:08:51.959662 i-capture-the-hostname UNK_CLIENT AF281F1C86DCF321_0001SID aascan_unit_test Error: CORELIB(315.2) "ncbidiag.hpp", line 123: ncbi::CConn_Streambuf::CConn_Streambuf() --- [CConn_Streambuf::CConn_Streambuf()] NULL connector: Unknown +2236188/000/0001/R AF281F1C86DCF321 0026/0026 2025-07-09T16:08:51.959809 i-capture-the-hostname UNK_CLIENT AF281F1C86DCF321_0001SID aascan_unit_test extra issued_subhit=7 +2236188/000/0001/R AF281F1C86DCF321 0027/0027 2025-07-09T16:08:54.460490 i-capture-the-hostname UNK_CLIENT AF281F1C86DCF321_0001SID aascan_unit_test extra issued_subhit=8 +2236188/000/0001/R AF281F1C86DCF321 0028/0028 2025-07-09T16:08:54.460739 i-capture-the-hostname UNK_CLIENT AF281F1C86DCF321_0001SID aascan_unit_test Error: CONNECT(302.22) "ncbi_priv.h", line 4228: UNK_FUNC --- SSOCK#4000[?]@:443: [SOCK::Connect] Failed SOCK_gethostbyname("www.ncbi.nlm.nih.gov") +2236188/000/0001/R AF281F1C86DCF321 0029/0029 2025-07-09T16:08:54.460762 i-capture-the-hostname UNK_CLIENT AF281F1C86DCF321_0001SID aascan_unit_test Error: CONNECT(303.7) "ncbi_priv.h", line 2119: UNK_FUNC --- [URL_Connect; https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=i-capture-the-hostname(127.0.1.1)&platform=x86_64-pc-linux-gnu] Failed to connect: Unknown +2236188/000/0001/R AF281F1C86DCF321 0030/0030 2025-07-09T16:08:54.460792 i-capture-the-hostname UNK_CLIENT AF281F1C86DCF321_0001SID aascan_unit_test Error: CONNECT(304.5) "ncbi_priv.h", line 205: UNK_FUNC --- [ID2] Unable to create connection with network dispatcher at "https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=i-capture-the-hostname(127.0.1.1)&platform=x86_64-pc-linux-gnu": Unknown +2236188/000/0001/R AF281F1C86DCF321 0031/0031 2025-07-09T16:08:54.460806 i-capture-the-hostname UNK_CLIENT AF281F1C86DCF321_0001SID aascan_unit_test Error: CONNECT(308.5) "ncbi_priv.h", line 102: UNK_FUNC --- [ID2] Service not found +2236188/000/0001/R AF281F1C86DCF321 0032/0032 2025-07-09T16:08:54.460820 i-capture-the-hostname UNK_CLIENT AF281F1C86DCF321_0001SID aascan_unit_test Error: CORELIB(315.2) "ncbidiag.hpp", line 123: ncbi::CConn_Streambuf::CConn_Streambuf() --- [CConn_Streambuf::CConn_Streambuf()] NULL connector: Unknown +2236188/000/0001/R AF281F1C86DCF321 0033/0033 2025-07-09T16:08:54.460975 i-capture-the-hostname UNK_CLIENT AF281F1C86DCF321_0001SID aascan_unit_test extra issued_subhit=9 +2236188/000/0001/R AF281F1C86DCF321 0034/0034 2025-07-09T16:08:59.211519 i-capture-the-hostname UNK_CLIENT AF281F1C86DCF321_0001SID aascan_unit_test extra issued_subhit=10 +2236188/000/0001/R AF281F1C86DCF321 0035/0035 2025-07-09T16:08:59.211766 i-capture-the-hostname UNK_CLIENT AF281F1C86DCF321_0001SID aascan_unit_test Error: CONNECT(302.22) "ncbi_priv.h", line 4228: UNK_FUNC --- SSOCK#5000[?]@:443: [SOCK::Connect] Failed SOCK_gethostbyname("www.ncbi.nlm.nih.gov") +2236188/000/0001/R AF281F1C86DCF321 0036/0036 2025-07-09T16:08:59.211792 i-capture-the-hostname UNK_CLIENT AF281F1C86DCF321_0001SID aascan_unit_test Error: CONNECT(303.7) "ncbi_priv.h", line 2119: UNK_FUNC --- [URL_Connect; https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=i-capture-the-hostname(127.0.1.1)&platform=x86_64-pc-linux-gnu] Failed to connect: Unknown +2236188/000/0001/R AF281F1C86DCF321 0037/0037 2025-07-09T16:08:59.211807 i-capture-the-hostname UNK_CLIENT AF281F1C86DCF321_0001SID aascan_unit_test Error: CONNECT(304.5) "ncbi_priv.h", line 205: UNK_FUNC --- [ID2] Unable to create connection with network dispatcher at "https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=i-capture-the-hostname(127.0.1.1)&platform=x86_64-pc-linux-gnu": Unknown +2236188/000/0001/R AF281F1C86DCF321 0038/0038 2025-07-09T16:08:59.211820 i-capture-the-hostname UNK_CLIENT AF281F1C86DCF321_0001SID aascan_unit_test Error: CONNECT(308.5) "ncbi_priv.h", line 102: UNK_FUNC --- [ID2] Service not found +2236188/000/0001/R AF281F1C86DCF321 0039/0039 2025-07-09T16:08:59.211834 i-capture-the-hostname UNK_CLIENT AF281F1C86DCF321_0001SID aascan_unit_test Error: CORELIB(315.2) "ncbidiag.hpp", line 123: ncbi::CConn_Streambuf::CConn_Streambuf() --- [CConn_Streambuf::CConn_Streambuf()] NULL connector: Unknown +2236188/000/0001/R AF281F1C86DCF321 0040/0040 2025-07-09T16:08:59.212132 i-capture-the-hostname UNK_CLIENT AF281F1C86DCF321_0001SID aascan_unit_test extra issued_subhit=11 +2236188/000/0001/R AF281F1C86DCF321 0041/0041 2025-07-09T16:09:07.339031 i-capture-the-hostname UNK_CLIENT AF281F1C86DCF321_0001SID aascan_unit_test extra issued_subhit=12 +2236188/000/0001/R AF281F1C86DCF321 0042/0042 2025-07-09T16:09:07.339371 i-capture-the-hostname UNK_CLIENT AF281F1C86DCF321_0001SID aascan_unit_test Error: CONNECT(302.22) "ncbi_priv.h", line 4228: UNK_FUNC --- SSOCK#6000[?]@:443: [SOCK::Connect] Failed SOCK_gethostbyname("www.ncbi.nlm.nih.gov") +2236188/000/0001/R AF281F1C86DCF321 0043/0043 2025-07-09T16:09:07.339404 i-capture-the-hostname UNK_CLIENT AF281F1C86DCF321_0001SID aascan_unit_test Error: CONNECT(303.7) "ncbi_priv.h", line 2119: UNK_FUNC --- [URL_Connect; https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=i-capture-the-hostname(127.0.1.1)&platform=x86_64-pc-linux-gnu] Failed to connect: Unknown +2236188/000/0001/R AF281F1C86DCF321 0044/0044 2025-07-09T16:09:07.339445 i-capture-the-hostname UNK_CLIENT AF281F1C86DCF321_0001SID aascan_unit_test Error: CONNECT(304.5) "ncbi_priv.h", line 205: UNK_FUNC --- [ID2] Unable to create connection with network dispatcher at "https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=i-capture-the-hostname(127.0.1.1)&platform=x86_64-pc-linux-gnu": Unknown +2236188/000/0001/R AF281F1C86DCF321 0045/0045 2025-07-09T16:09:07.339468 i-capture-the-hostname UNK_CLIENT AF281F1C86DCF321_0001SID aascan_unit_test Error: CONNECT(308.5) "ncbi_priv.h", line 102: UNK_FUNC --- [ID2] Service not found +2236188/000/0001/R AF281F1C86DCF321 0046/0046 2025-07-09T16:09:07.339488 i-capture-the-hostname UNK_CLIENT AF281F1C86DCF321_0001SID aascan_unit_test Error: CORELIB(315.2) "ncbidiag.hpp", line 123: ncbi::CConn_Streambuf::CConn_Streambuf() --- [CConn_Streambuf::CConn_Streambuf()] NULL connector: Unknown +2236188/000/0001/R AF281F1C86DCF321 0047/0047 2025-07-09T16:09:07.339705 i-capture-the-hostname UNK_CLIENT AF281F1C86DCF321_0001SID aascan_unit_test extra issued_subhit=13 +2236188/000/0001/R AF281F1C86DCF321 0048/0048 2025-07-09T16:09:20.528748 i-capture-the-hostname UNK_CLIENT AF281F1C86DCF321_0001SID aascan_unit_test extra issued_subhit=14 +2236188/000/0001/R AF281F1C86DCF321 0049/0049 2025-07-09T16:09:20.529004 i-capture-the-hostname UNK_CLIENT AF281F1C86DCF321_0001SID aascan_unit_test Error: CONNECT(302.22) "ncbi_priv.h", line 4228: UNK_FUNC --- SSOCK#7000[?]@:443: [SOCK::Connect] Failed SOCK_gethostbyname("www.ncbi.nlm.nih.gov") +2236188/000/0001/R AF281F1C86DCF321 0050/0050 2025-07-09T16:09:20.529028 i-capture-the-hostname UNK_CLIENT AF281F1C86DCF321_0001SID aascan_unit_test Error: CONNECT(303.7) "ncbi_priv.h", line 2119: UNK_FUNC --- [URL_Connect; https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=i-capture-the-hostname(127.0.1.1)&platform=x86_64-pc-linux-gnu] Failed to connect: Unknown +2236188/000/0001/R AF281F1C86DCF321 0051/0051 2025-07-09T16:09:20.529043 i-capture-the-hostname UNK_CLIENT AF281F1C86DCF321_0001SID aascan_unit_test Error: CONNECT(304.5) "ncbi_priv.h", line 205: UNK_FUNC --- [ID2] Unable to create connection with network dispatcher at "https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=i-capture-the-hostname(127.0.1.1)&platform=x86_64-pc-linux-gnu": Unknown +2236188/000/0001/R AF281F1C86DCF321 0052/0052 2025-07-09T16:09:20.529055 i-capture-the-hostname UNK_CLIENT AF281F1C86DCF321_0001SID aascan_unit_test Error: CONNECT(308.5) "ncbi_priv.h", line 102: UNK_FUNC --- [ID2] Service not found +2236188/000/0001/R AF281F1C86DCF321 0053/0053 2025-07-09T16:09:20.529069 i-capture-the-hostname UNK_CLIENT AF281F1C86DCF321_0001SID aascan_unit_test Error: CORELIB(315.2) "ncbidiag.hpp", line 123: ncbi::CConn_Streambuf::CConn_Streambuf() --- [CConn_Streambuf::CConn_Streambuf()] NULL connector: Unknown +2236188/000/0001/R AF281F1C86DCF321 0054/0054 2025-07-09T16:09:20.529242 i-capture-the-hostname UNK_CLIENT AF281F1C86DCF321_0001SID aascan_unit_test extra issued_subhit=15 +2236188/000/0001/R AF281F1C86DCF321 0055/0055 2025-07-09T16:09:41.311023 i-capture-the-hostname UNK_CLIENT AF281F1C86DCF321_0001SID aascan_unit_test extra issued_subhit=16 +2236188/000/0001/R AF281F1C86DCF321 0056/0056 2025-07-09T16:09:41.311255 i-capture-the-hostname UNK_CLIENT AF281F1C86DCF321_0001SID aascan_unit_test Error: CONNECT(302.22) "ncbi_priv.h", line 4228: UNK_FUNC --- SSOCK#8000[?]@:443: [SOCK::Connect] Failed SOCK_gethostbyname("www.ncbi.nlm.nih.gov") +2236188/000/0001/R AF281F1C86DCF321 0057/0057 2025-07-09T16:09:41.311280 i-capture-the-hostname UNK_CLIENT AF281F1C86DCF321_0001SID aascan_unit_test Error: CONNECT(303.7) "ncbi_priv.h", line 2119: UNK_FUNC --- [URL_Connect; https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=i-capture-the-hostname(127.0.1.1)&platform=x86_64-pc-linux-gnu] Failed to connect: Unknown +2236188/000/0001/R AF281F1C86DCF321 0058/0058 2025-07-09T16:09:41.311304 i-capture-the-hostname UNK_CLIENT AF281F1C86DCF321_0001SID aascan_unit_test Error: CONNECT(304.5) "ncbi_priv.h", line 205: UNK_FUNC --- [ID2] Unable to create connection with network dispatcher at "https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=i-capture-the-hostname(127.0.1.1)&platform=x86_64-pc-linux-gnu": Unknown +2236188/000/0001/R AF281F1C86DCF321 0059/0059 2025-07-09T16:09:41.311317 i-capture-the-hostname UNK_CLIENT AF281F1C86DCF321_0001SID aascan_unit_test Error: CONNECT(308.5) "ncbi_priv.h", line 102: UNK_FUNC --- [ID2] Service not found +2236188/000/0001/R AF281F1C86DCF321 0060/0060 2025-07-09T16:09:41.311328 i-capture-the-hostname UNK_CLIENT AF281F1C86DCF321_0001SID aascan_unit_test Error: CORELIB(315.2) "ncbidiag.hpp", line 123: ncbi::CConn_Streambuf::CConn_Streambuf() --- [CConn_Streambuf::CConn_Streambuf()] NULL connector: Unknown +2236188/000/0001/R AF281F1C86DCF321 0061/0061 2025-07-09T16:09:41.311487 i-capture-the-hostname UNK_CLIENT AF281F1C86DCF321_0001SID aascan_unit_test extra issued_subhit=17 +2236188/000/0001/R AF281F1C86DCF321 0062/0062 2025-07-09T16:10:11.312768 i-capture-the-hostname UNK_CLIENT AF281F1C86DCF321_0001SID aascan_unit_test extra issued_subhit=18 +2236188/000/0001/R AF281F1C86DCF321 0063/0063 2025-07-09T16:10:11.313048 i-capture-the-hostname UNK_CLIENT AF281F1C86DCF321_0001SID aascan_unit_test Error: CONNECT(302.22) "ncbi_priv.h", line 4228: UNK_FUNC --- SSOCK#9000[?]@:443: [SOCK::Connect] Failed SOCK_gethostbyname("www.ncbi.nlm.nih.gov") +2236188/000/0001/R AF281F1C86DCF321 0064/0064 2025-07-09T16:10:11.313092 i-capture-the-hostname UNK_CLIENT AF281F1C86DCF321_0001SID aascan_unit_test Error: CONNECT(303.7) "ncbi_priv.h", line 2119: UNK_FUNC --- [URL_Connect; https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=i-capture-the-hostname(127.0.1.1)&platform=x86_64-pc-linux-gnu] Failed to connect: Unknown +2236188/000/0001/R AF281F1C86DCF321 0065/0065 2025-07-09T16:10:11.313116 i-capture-the-hostname UNK_CLIENT AF281F1C86DCF321_0001SID aascan_unit_test Error: CONNECT(304.5) "ncbi_priv.h", line 205: UNK_FUNC --- [ID2] Unable to create connection with network dispatcher at "https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=i-capture-the-hostname(127.0.1.1)&platform=x86_64-pc-linux-gnu": Unknown +2236188/000/0001/R AF281F1C86DCF321 0066/0066 2025-07-09T16:10:11.313130 i-capture-the-hostname UNK_CLIENT AF281F1C86DCF321_0001SID aascan_unit_test Error: CONNECT(308.5) "ncbi_priv.h", line 102: UNK_FUNC --- [ID2] Service not found +2236188/000/0001/R AF281F1C86DCF321 0067/0067 2025-07-09T16:10:11.313144 i-capture-the-hostname UNK_CLIENT AF281F1C86DCF321_0001SID aascan_unit_test Error: CORELIB(315.2) "ncbidiag.hpp", line 123: ncbi::CConn_Streambuf::CConn_Streambuf() --- [CConn_Streambuf::CConn_Streambuf()] NULL connector: Unknown +2236188/000/0001/R AF281F1C86DCF321 0068/0068 2025-07-09T16:10:11.313342 i-capture-the-hostname UNK_CLIENT AF281F1C86DCF321_0001SID aascan_unit_test extra issued_subhit=19 +2236188/000/0001/R AF281F1C86DCF321 0069/0069 2025-07-09T16:10:41.314025 i-capture-the-hostname UNK_CLIENT AF281F1C86DCF321_0001SID aascan_unit_test extra issued_subhit=20 +2236188/000/0001/R AF281F1C86DCF321 0070/0070 2025-07-09T16:10:41.314296 i-capture-the-hostname UNK_CLIENT AF281F1C86DCF321_0001SID aascan_unit_test Error: CONNECT(302.22) "ncbi_priv.h", line 4228: UNK_FUNC --- SSOCK#10000[?]@:443: [SOCK::Connect] Failed SOCK_gethostbyname("www.ncbi.nlm.nih.gov") +2236188/000/0001/R AF281F1C86DCF321 0071/0071 2025-07-09T16:10:41.314323 i-capture-the-hostname UNK_CLIENT AF281F1C86DCF321_0001SID aascan_unit_test Error: CONNECT(303.7) "ncbi_priv.h", line 2119: UNK_FUNC --- [URL_Connect; https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=i-capture-the-hostname(127.0.1.1)&platform=x86_64-pc-linux-gnu] Failed to connect: Unknown +2236188/000/0001/R AF281F1C86DCF321 0072/0072 2025-07-09T16:10:41.314359 i-capture-the-hostname UNK_CLIENT AF281F1C86DCF321_0001SID aascan_unit_test Error: CONNECT(304.5) "ncbi_priv.h", line 205: UNK_FUNC --- [ID2] Unable to create connection with network dispatcher at "https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=i-capture-the-hostname(127.0.1.1)&platform=x86_64-pc-linux-gnu": Unknown +2236188/000/0001/R AF281F1C86DCF321 0073/0073 2025-07-09T16:10:41.314441 i-capture-the-hostname UNK_CLIENT AF281F1C86DCF321_0001SID aascan_unit_test Error: CONNECT(308.5) "ncbi_priv.h", line 102: UNK_FUNC --- [ID2] Service not found +2236188/000/0001/R AF281F1C86DCF321 0074/0074 2025-07-09T16:10:41.314457 i-capture-the-hostname UNK_CLIENT AF281F1C86DCF321_0001SID aascan_unit_test Error: CORELIB(315.2) "ncbidiag.hpp", line 123: ncbi::CConn_Streambuf::CConn_Streambuf() --- [CConn_Streambuf::CConn_Streambuf()] NULL connector: Unknown +2236188/000/0001/RE AF281F1C86DCF321 0075/0075 2025-07-09T16:10:41.314855 i-capture-the-hostname UNK_CLIENT AF281F1C86DCF321_0001SID aascan_unit_test request-stop 500 110.362786054 0 0 unknown location(0): fatal error: in "aascan/ScanOffsetTest": ncbi::objects::CLoaderException: NCBI C++ Exception: Error: CORELIB(CLoaderException::eConnectionFailed) "c++/include/corelib/ncbidiag.hpp", line 254: ncbi::objects::CId2Reader::x_ConnectAtSlot() --- cannot open connection: ID2 Error: CORELIB(CLoaderException::eConnectionFailed) "c++/include/corelib/ncbidiag.hpp", line 1840: ncbi::objects::CId2ReaderBase::x_SendID2Packet() --- failed to send request: NULL ./c++/src/algo/blast/unit_tests/api/aascan_unit_test.cpp(251): last checkpoint: "ScanOffsetTest" fixture entry. -3324041/000/0002/RB 34C7B889660BA461 0078/0078 2024-06-05T07:21:25.016460 infom01-amd64 UNK_CLIENT UNK_SESSION aascan_unit_test request-start test_name=ScanMaxHitsTest&ncbi_app_version=2.12.0 -3324041/000/0002/R 34C7B889660BA461 0079/0079 2024-06-05T07:21:25.016584 infom01-amd64 UNK_CLIENT UNK_SESSION aascan_unit_test extra ncbi_phid=34C7B889660BA4610000000000020002 -3324041/000/0002/R 34C7B889660BA461 0080/0080 2024-06-05T07:21:25.016595 infom01-amd64 UNK_CLIENT UNK_SESSION aascan_unit_test extra issued_subhit=1 -3324041/000/0002/R 34C7B889660BA461 0081/0081 2024-06-05T07:21:55.017266 infom01-amd64 UNK_CLIENT 34C7B889660BAD31_0002SID aascan_unit_test extra issued_subhit=2 -3324041/000/0002/R 34C7B889660BA461 0082/0082 2024-06-05T07:21:55.017601 infom01-amd64 UNK_CLIENT 34C7B889660BAD31_0002SID aascan_unit_test Error: CONNECT(302.22) "ncbi_priv.h", line 4228: UNK_FUNC --- SSOCK#11000[?]@:443: [SOCK::Connect] Failed SOCK_gethostbyname("www.ncbi.nlm.nih.gov") -3324041/000/0002/R 34C7B889660BA461 0083/0083 2024-06-05T07:21:55.017631 infom01-amd64 UNK_CLIENT 34C7B889660BAD31_0002SID aascan_unit_test Error: CONNECT(303.7) "ncbi_priv.h", line 2119: UNK_FUNC --- [URL_Connect; https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=infom01-amd64(127.0.1.1)&platform=x86_64-pc-linux-gnu] Failed to connect: Unknown -3324041/000/0002/R 34C7B889660BA461 0084/0084 2024-06-05T07:21:55.017649 infom01-amd64 UNK_CLIENT 34C7B889660BAD31_0002SID aascan_unit_test Error: CONNECT(304.5) "ncbi_priv.h", line 205: UNK_FUNC --- [ID2] Unable to create connection with network dispatcher at "https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=infom01-amd64(127.0.1.1)&platform=x86_64-pc-linux-gnu": Unknown -3324041/000/0002/R 34C7B889660BA461 0085/0085 2024-06-05T07:21:55.017664 infom01-amd64 UNK_CLIENT 34C7B889660BAD31_0002SID aascan_unit_test Error: CONNECT(308.5) "ncbi_priv.h", line 102: UNK_FUNC --- [ID2] Service not found -3324041/000/0002/R 34C7B889660BA461 0086/0086 2024-06-05T07:21:55.017680 infom01-amd64 UNK_CLIENT 34C7B889660BAD31_0002SID aascan_unit_test Error: CORELIB(315.2) "ncbidiag.hpp", line 123: ncbi::CConn_Streambuf::CConn_Streambuf() --- [CConn_Streambuf::CConn_Streambuf()] NULL connector: Unknown -3324041/000/0002/R 34C7B889660BA461 0087/0087 2024-06-05T07:21:55.017857 infom01-amd64 UNK_CLIENT 34C7B889660BAD31_0002SID aascan_unit_test extra issued_subhit=3 -3324041/000/0002/R 34C7B889660BA461 0088/0088 2024-06-05T07:22:25.018372 infom01-amd64 UNK_CLIENT 34C7B889660BAD31_0002SID aascan_unit_test extra issued_subhit=4 -3324041/000/0002/R 34C7B889660BA461 0089/0089 2024-06-05T07:22:25.018687 infom01-amd64 UNK_CLIENT 34C7B889660BAD31_0002SID aascan_unit_test Error: CONNECT(302.22) "ncbi_priv.h", line 4228: UNK_FUNC --- SSOCK#12000[?]@:443: [SOCK::Connect] Failed SOCK_gethostbyname("www.ncbi.nlm.nih.gov") -3324041/000/0002/R 34C7B889660BA461 0090/0090 2024-06-05T07:22:25.018728 infom01-amd64 UNK_CLIENT 34C7B889660BAD31_0002SID aascan_unit_test Error: CONNECT(303.7) "ncbi_priv.h", line 2119: UNK_FUNC --- [URL_Connect; https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=infom01-amd64(127.0.1.1)&platform=x86_64-pc-linux-gnu] Failed to connect: Unknown -3324041/000/0002/R 34C7B889660BA461 0091/0091 2024-06-05T07:22:25.018743 infom01-amd64 UNK_CLIENT 34C7B889660BAD31_0002SID aascan_unit_test Error: CONNECT(304.5) "ncbi_priv.h", line 205: UNK_FUNC --- [ID2] Unable to create connection with network dispatcher at "https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=infom01-amd64(127.0.1.1)&platform=x86_64-pc-linux-gnu": Unknown -3324041/000/0002/R 34C7B889660BA461 0092/0092 2024-06-05T07:22:25.018754 infom01-amd64 UNK_CLIENT 34C7B889660BAD31_0002SID aascan_unit_test Error: CONNECT(308.5) "ncbi_priv.h", line 102: UNK_FUNC --- [ID2] Service not found -3324041/000/0002/R 34C7B889660BA461 0093/0093 2024-06-05T07:22:25.018769 infom01-amd64 UNK_CLIENT 34C7B889660BAD31_0002SID aascan_unit_test Error: CORELIB(315.2) "ncbidiag.hpp", line 123: ncbi::CConn_Streambuf::CConn_Streambuf() --- [CConn_Streambuf::CConn_Streambuf()] NULL connector: Unknown -3324041/000/0002/R 34C7B889660BA461 0094/0094 2024-06-05T07:22:25.018892 infom01-amd64 UNK_CLIENT 34C7B889660BAD31_0002SID aascan_unit_test extra issued_subhit=5 +2236188/000/0002/RB AF281F1C86DCF321 0078/0078 2025-07-09T16:10:41.315561 i-capture-the-hostname UNK_CLIENT UNK_SESSION aascan_unit_test request-start test_name=ScanMaxHitsTest&ncbi_app_version=2.12.0 +2236188/000/0002/R AF281F1C86DCF321 0079/0079 2025-07-09T16:10:41.315666 i-capture-the-hostname UNK_CLIENT UNK_SESSION aascan_unit_test extra ncbi_phid=AF281F1C86DCF3210000000000020002 +2236188/000/0002/R AF281F1C86DCF321 0080/0080 2025-07-09T16:10:41.315677 i-capture-the-hostname UNK_CLIENT UNK_SESSION aascan_unit_test extra issued_subhit=1 +2236188/000/0002/R AF281F1C86DCF321 0081/0081 2025-07-09T16:11:11.316359 i-capture-the-hostname UNK_CLIENT AF281F1C86DCFBF1_0002SID aascan_unit_test extra issued_subhit=2 +2236188/000/0002/R AF281F1C86DCF321 0082/0082 2025-07-09T16:11:11.316629 i-capture-the-hostname UNK_CLIENT AF281F1C86DCFBF1_0002SID aascan_unit_test Error: CONNECT(302.22) "ncbi_priv.h", line 4228: UNK_FUNC --- SSOCK#11000[?]@:443: [SOCK::Connect] Failed SOCK_gethostbyname("www.ncbi.nlm.nih.gov") +2236188/000/0002/R AF281F1C86DCF321 0083/0083 2025-07-09T16:11:11.316656 i-capture-the-hostname UNK_CLIENT AF281F1C86DCFBF1_0002SID aascan_unit_test Error: CONNECT(303.7) "ncbi_priv.h", line 2119: UNK_FUNC --- [URL_Connect; https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=i-capture-the-hostname(127.0.1.1)&platform=x86_64-pc-linux-gnu] Failed to connect: Unknown +2236188/000/0002/R AF281F1C86DCF321 0084/0084 2025-07-09T16:11:11.316673 i-capture-the-hostname UNK_CLIENT AF281F1C86DCFBF1_0002SID aascan_unit_test Error: CONNECT(304.5) "ncbi_priv.h", line 205: UNK_FUNC --- [ID2] Unable to create connection with network dispatcher at "https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=i-capture-the-hostname(127.0.1.1)&platform=x86_64-pc-linux-gnu": Unknown +2236188/000/0002/R AF281F1C86DCF321 0085/0085 2025-07-09T16:11:11.316688 i-capture-the-hostname UNK_CLIENT AF281F1C86DCFBF1_0002SID aascan_unit_test Error: CONNECT(308.5) "ncbi_priv.h", line 102: UNK_FUNC --- [ID2] Service not found +2236188/000/0002/R AF281F1C86DCF321 0086/0086 2025-07-09T16:11:11.316703 i-capture-the-hostname UNK_CLIENT AF281F1C86DCFBF1_0002SID aascan_unit_test Error: CORELIB(315.2) "ncbidiag.hpp", line 123: ncbi::CConn_Streambuf::CConn_Streambuf() --- [CConn_Streambuf::CConn_Streambuf()] NULL connector: Unknown +2236188/000/0002/R AF281F1C86DCF321 0087/0087 2025-07-09T16:11:11.316889 i-capture-the-hostname UNK_CLIENT AF281F1C86DCFBF1_0002SID aascan_unit_test extra issued_subhit=3 +2236188/000/0002/R AF281F1C86DCF321 0088/0088 2025-07-09T16:11:41.317897 i-capture-the-hostname UNK_CLIENT AF281F1C86DCFBF1_0002SID aascan_unit_test extra issued_subhit=4 +2236188/000/0002/R AF281F1C86DCF321 0089/0089 2025-07-09T16:11:41.318202 i-capture-the-hostname UNK_CLIENT AF281F1C86DCFBF1_0002SID aascan_unit_test Error: CONNECT(302.22) "ncbi_priv.h", line 4228: UNK_FUNC --- SSOCK#12000[?]@:443: [SOCK::Connect] Failed SOCK_gethostbyname("www.ncbi.nlm.nih.gov") +2236188/000/0002/R AF281F1C86DCF321 0090/0090 2025-07-09T16:11:41.318238 i-capture-the-hostname UNK_CLIENT AF281F1C86DCFBF1_0002SID aascan_unit_test Error: CONNECT(303.7) "ncbi_priv.h", line 2119: UNK_FUNC --- [URL_Connect; https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=i-capture-the-hostname(127.0.1.1)&platform=x86_64-pc-linux-gnu] Failed to connect: Unknown +2236188/000/0002/R AF281F1C86DCF321 0091/0091 2025-07-09T16:11:41.318263 i-capture-the-hostname UNK_CLIENT AF281F1C86DCFBF1_0002SID aascan_unit_test Error: CONNECT(304.5) "ncbi_priv.h", line 205: UNK_FUNC --- [ID2] Unable to create connection with network dispatcher at "https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=i-capture-the-hostname(127.0.1.1)&platform=x86_64-pc-linux-gnu": Unknown +2236188/000/0002/R AF281F1C86DCF321 0092/0092 2025-07-09T16:11:41.318286 i-capture-the-hostname UNK_CLIENT AF281F1C86DCFBF1_0002SID aascan_unit_test Error: CONNECT(308.5) "ncbi_priv.h", line 102: UNK_FUNC --- [ID2] Service not found +2236188/000/0002/R AF281F1C86DCF321 0093/0093 2025-07-09T16:11:41.318309 i-capture-the-hostname UNK_CLIENT AF281F1C86DCFBF1_0002SID aascan_unit_test Error: CORELIB(315.2) "ncbidiag.hpp", line 123: ncbi::CConn_Streambuf::CConn_Streambuf() --- [CConn_Streambuf::CConn_Streambuf()] NULL connector: Unknown +2236188/000/0002/R AF281F1C86DCF321 0094/0094 2025-07-09T16:11:41.318576 i-capture-the-hostname UNK_CLIENT AF281F1C86DCFBF1_0002SID aascan_unit_test extra issued_subhit=5 Maximum execution time of 200 second(s) is exceeded -real 200.13 -user 0.12 -sys 0.05 -Start time : 06/05/2024 07:19:34 -Stop time : 06/05/2024 07:22:54 -Load averages: 0.61 9.99 9.12 +real 200.21 +user 0.17 +sys 0.10 +Start time : 07/09/2025 16:08:50 +Stop time : 07/09/2025 16:12:11 +Load averages: 0.77 12.45 12.94 @@@@@@@@@@@@@@@@@@@@@@@@@@@@@@ @@@ EXIT CODE: 143 @@ -73691,9 +73726,9 @@ dh_gencontrol -O--sourcedirectory=c\+\+ dh_md5sums -O--sourcedirectory=c\+\+ dh_builddeb -O--sourcedirectory=c\+\+ +dpkg-deb: building package 'ncbi-blast+-dbgsym' in '../ncbi-blast+-dbgsym_2.12.0+ds-4_amd64.deb'. dpkg-deb: building package 'ncbi-blast+' in '../ncbi-blast+_2.12.0+ds-4_amd64.deb'. dpkg-deb: building package 'ncbi-blast+-legacy' in '../ncbi-blast+-legacy_2.12.0+ds-4_all.deb'. -dpkg-deb: building package 'ncbi-blast+-dbgsym' in '../ncbi-blast+-dbgsym_2.12.0+ds-4_amd64.deb'. dpkg-genbuildinfo --build=binary -O../ncbi-blast+_2.12.0+ds-4_amd64.buildinfo dpkg-genchanges --build=binary -O../ncbi-blast+_2.12.0+ds-4_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) @@ -73702,12 +73737,14 @@ dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration +I: user script /srv/workspace/pbuilder/2125422/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/2125422/tmp/hooks/B01_cleanup finished I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env -I: removing directory /srv/workspace/pbuilder/3227895 and its subdirectories -I: Current time: Wed Jun 5 07:25:18 -12 2024 -I: pbuilder-time-stamp: 1717615518 +I: removing directory /srv/workspace/pbuilder/2125422 and its subdirectories +I: Current time: Wed Jul 9 16:14:58 +14 2025 +I: pbuilder-time-stamp: 1752027298