Diff of the two buildlogs: -- --- b1/build.log 2024-05-30 23:09:29.480038640 +0000 +++ b2/build.log 2024-05-30 23:17:58.742400020 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Wed Jul 2 17:29:07 -12 2025 -I: pbuilder-time-stamp: 1751520547 +I: Current time: Fri May 31 13:09:38 +14 2024 +I: pbuilder-time-stamp: 1717110578 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz] I: copying local configuration @@ -34,52 +34,84 @@ dpkg-source: info: applying gcc-13.patch I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/4015634/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/1815852/tmp/hooks/D01_modify_environment starting +debug: Running on ionos1-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 May 30 23:10 /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/1815852/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/1815852/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' - DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=42 ' - DISTRIBUTION='unstable' - HOME='/root' - HOST_ARCH='amd64' + 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=20 ' + 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='64e431f3505f4203b11a56ca039d6246' - 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='4015634' - PS1='# ' - PS2='> ' + INVOCATION_ID=b645d534a1e64bd0a82a4e83cf30a271 + 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=1815852 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.AEnYmr0U/pbuilderrc_cDAj --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.AEnYmr0U/b1 --logfile b1/build.log kmc_3.2.4+dfsg-1.dsc' - SUDO_GID='111' - SUDO_UID='106' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - _='/usr/bin/systemd-run' - http_proxy='http://213.165.73.152:3128' + 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.AEnYmr0U/pbuilderrc_hV8R --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.AEnYmr0U/b2 --logfile b2/build.log kmc_3.2.4+dfsg-1.dsc' + SUDO_GID=110 + SUDO_UID=105 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' + http_proxy=http://46.16.76.132:3128 I: uname -a - Linux ionos15-amd64 6.7.12+bpo-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.7.12-1~bpo12+1 (2024-05-06) x86_64 GNU/Linux + Linux i-capture-the-hostname 6.1.0-21-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.90-1 (2024-05-03) x86_64 GNU/Linux I: ls -l /bin - lrwxrwxrwx 1 root root 7 Jun 30 14:05 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/4015634/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 May 27 07:42 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/1815852/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -183,7 +215,7 @@ Get: 52 http://deb.debian.org/debian unstable/main amd64 libbz2-dev amd64 1.0.8-5.1 [31.3 kB] Get: 53 http://deb.debian.org/debian unstable/main amd64 libsimde-dev all 0.8.2-1 [465 kB] Get: 54 http://deb.debian.org/debian unstable/main amd64 zlib1g-dev amd64 1:1.3.dfsg+really1.3.1-1 [919 kB] -Fetched 29.4 MB in 5s (5764 kB/s) +Fetched 29.4 MB in 6s (4651 kB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package liblocale-gettext-perl. (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 ... 19716 files and directories currently installed.) @@ -421,7 +453,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/kmc-3.2.4+dfsg/ && 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 > ../kmc_3.2.4+dfsg-1_source.changes +I: user script /srv/workspace/pbuilder/1815852/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for unstable +I: user script /srv/workspace/pbuilder/1815852/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/kmc-3.2.4+dfsg/ && 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 > ../kmc_3.2.4+dfsg-1_source.changes dpkg-buildpackage: info: source package kmc dpkg-buildpackage: info: source version 3.2.4+dfsg-1 dpkg-buildpackage: info: source distribution unstable @@ -431,7 +467,7 @@ debian/rules clean dh clean dh_auto_clean - make -j42 clean + make -j20 clean make[1]: Entering directory '/build/reproducible-path/kmc-3.2.4+dfsg' make[1]: git: No such file or directory rm -f kmc_core/*.o @@ -465,7 +501,7 @@ debian/rules override_dh_auto_build make[1]: Entering directory '/build/reproducible-path/kmc-3.2.4+dfsg' dh_auto_build -- SIMD=1 - make -j42 "INSTALL=install --strip-program=true" SIMD=1 + make -j20 "INSTALL=install --strip-program=true" SIMD=1 make[2]: Entering directory '/build/reproducible-path/kmc-3.2.4+dfsg' make[2]: git: No such file or directory g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/kmc-3.2.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wall -O3 -fsigned-char -std=c++14 -c kmc_CLI/kmc.cpp -o kmc_CLI/kmc.o @@ -488,22 +524,6 @@ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/kmc-3.2.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wall -O3 -fsigned-char -std=c++14 -mavx2 -c kmc_core/raduls_avx2.cpp -o kmc_core/raduls_avx2.o g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/kmc-3.2.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wall -O3 -fsigned-char -std=c++14 -mavx -c kmc_core/raduls_avx.cpp -o kmc_core/raduls_avx.o g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/kmc-3.2.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wall -O3 -fsigned-char -std=c++14 -c kmc_api/mmer.cpp -o kmc_api/mmer.o -g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/kmc-3.2.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wall -O3 -fsigned-char -std=c++14 -c kmc_api/kmc_file.cpp -o kmc_api/kmc_file.o -g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/kmc-3.2.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wall -O3 -fsigned-char -std=c++14 -c kmc_api/kmer_api.cpp -o kmc_api/kmer_api.o -g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/kmc-3.2.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wall -O3 -fsigned-char -std=c++14 -c kmc_core/kff_writer.cpp -o kmc_core/kff_writer.o -g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/kmc-3.2.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wall -O3 -fsigned-char -std=c++14 -c kmc_dump/nc_utils.cpp -o kmc_dump/nc_utils.o -g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/kmc-3.2.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wall -O3 -fsigned-char -std=c++14 -c kmc_dump/kmc_dump.cpp -o kmc_dump/kmc_dump.o -g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/kmc-3.2.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wall -O3 -fsigned-char -std=c++14 -c kmc_tools/kmer_file_header.cpp -o kmc_tools/kmer_file_header.o -g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/kmc-3.2.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wall -O3 -fsigned-char -std=c++14 -c kmc_tools/kmc_tools.cpp -o kmc_tools/kmc_tools.o -g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/kmc-3.2.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wall -O3 -fsigned-char -std=c++14 -c kmc_tools/nc_utils.cpp -o kmc_tools/nc_utils.o -g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/kmc-3.2.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wall -O3 -fsigned-char -std=c++14 -c kmc_tools/parameters_parser.cpp -o kmc_tools/parameters_parser.o -g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/kmc-3.2.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wall -O3 -fsigned-char -std=c++14 -c kmc_tools/parser.cpp -o kmc_tools/parser.o -g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/kmc-3.2.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wall -O3 -fsigned-char -std=c++14 -c kmc_tools/tokenizer.cpp -o kmc_tools/tokenizer.o -g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/kmc-3.2.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wall -O3 -fsigned-char -std=c++14 -c kmc_tools/fastq_filter.cpp -o kmc_tools/fastq_filter.o -g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/kmc-3.2.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wall -O3 -fsigned-char -std=c++14 -c kmc_tools/fastq_reader.cpp -o kmc_tools/fastq_reader.o -g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/kmc-3.2.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wall -O3 -fsigned-char -std=c++14 -c kmc_tools/fastq_writer.cpp -o kmc_tools/fastq_writer.o -g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/kmc-3.2.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wall -O3 -fsigned-char -std=c++14 -c kmc_tools/percent_progress.cpp -o kmc_tools/percent_progress.o -g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/kmc-3.2.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wall -O3 -fsigned-char -std=c++14 -c kmc_tools/kff_info_reader.cpp -o kmc_tools/kff_info_reader.o In file included from kmc_core/raduls_sse2.cpp:20: kmc_core/raduls_impl.h:769:2: warning: #warning "building raduls radix sort for sse2" [-Wcpp] 769 | #warning "building raduls radix sort for sse2" @@ -512,117 +532,19 @@ kmc_core/raduls_impl.h:763:2: warning: #warning "building raduls radix sort for sse4.1" [-Wcpp] 763 | #warning "building raduls radix sort for sse4.1" | ^~~~~~~ -In file included from kmc_core/raduls_avx2.cpp:11: -kmc_core/raduls_impl.h:757:2: warning: #warning "building raduls radix sort for avx2" [-Wcpp] - 757 | #warning "building raduls radix sort for avx2" - | ^~~~~~~ +g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/kmc-3.2.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wall -O3 -fsigned-char -std=c++14 -c kmc_api/kmc_file.cpp -o kmc_api/kmc_file.o +g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/kmc-3.2.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wall -O3 -fsigned-char -std=c++14 -c kmc_api/kmer_api.cpp -o kmc_api/kmer_api.o In file included from kmc_core/raduls_avx.cpp:14: kmc_core/raduls_impl.h:760:2: warning: #warning "building raduls radix sort for avx" [-Wcpp] 760 | #warning "building raduls radix sort for avx" | ^~~~~~~ -kmc_tools/kff_info_reader.cpp: In constructor 'CKFFInfoReader::CKFFInfoReader(const std::string&)': -kmc_tools/kff_info_reader.cpp:35:14: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] - 35 | fread(marker, 1, 3, file); - | ~~~~~^~~~~~~~~~~~~~~~~~~~ -kmc_tools/kff_info_reader.cpp:40:14: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] - 40 | fread(marker, 1, 3, file); - | ~~~~~^~~~~~~~~~~~~~~~~~~~ -kmc_tools/kff_info_reader.cpp:46:14: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] - 46 | fread(footer_size_str, 1, 12, file); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -kmc_tools/kff_info_reader.cpp:55:22: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] - 55 | fread(tmp.data(), 1, 8, file); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -kmc_tools/kff_info_reader.cpp:62:22: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] - 62 | fread(tmp.data(), 1, 1, file); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -kmc_tools/kff_info_reader.cpp:68:22: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] - 68 | fread(tmp.data(), 1, 8, file); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -kmc_tools/kff_info_reader.cpp:77:30: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] - 77 | fread(tmp.data(), 1, 8, file); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -kmc_tools/kff_info_reader.cpp:90:14: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] - 90 | fread(tmp.data(), 1, 1, file); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -kmc_tools/kff_info_reader.cpp:93:14: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] - 93 | fread(tmp.data(), 1, 1, file); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -kmc_tools/kff_info_reader.cpp:97:14: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] - 97 | fread(tmp.data(), 1, 1, file); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -kmc_tools/kff_info_reader.cpp:100:14: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] - 100 | fread(tmp.data(), 1, 1, file); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -kmc_tools/kff_info_reader.cpp:106:14: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] - 106 | fread(tmp.data(), 1, 1, file); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -kmc_tools/kff_info_reader.cpp:112:14: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] - 112 | fread(tmp.data(), 1, sizeof(free_size), file); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -kmc_tools/kff_info_reader.cpp:117:14: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] - 117 | fread(tmp.data(), 1, 1, file); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -kmc_tools/kff_info_reader.cpp:137:22: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] - 137 | fread(tmp.data(), 1, 1, file); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -kmc_tools/kff_info_reader.cpp:142:22: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] - 142 | fread(tmp.data(), 1, 8, file); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -kmc_tools/kff_info_reader.cpp:151:30: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] - 151 | fread(tmp.data(), 1, 1, file); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -kmc_tools/kff_info_reader.cpp:155:30: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] - 155 | fread(tmp.data(), 1, 8, file); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -kmc_tools/kff_info_reader.cpp:162:22: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] - 162 | fread(tmp.data(), 1, 8, file); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -kmc_tools/kff_info_reader.cpp:174:22: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] - 174 | fread(tmp.data(), 1, 1, file); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -kmc_tools/kff_info_reader.cpp:183:22: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] - 183 | fread(tmp.data(), 1, 1, file); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -kmc_tools/kff_info_reader.cpp: In member function 'void CKFFInfoReader::ReadVariableSection()': -kmc_tools/kff_info_reader.cpp:208:14: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] - 208 | fread(tmp.data(), 1, sizeof(uint64_t), file); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -kmc_tools/kff_info_reader.cpp:215:22: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] - 215 | fread(tmp.data(), 1, sizeof(uint64_t), file); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -kmc_tools/kff_info_reader.cpp: In member function 'void CKFFInfoReader::ReadRawSection()': -kmc_tools/kff_info_reader.cpp:254:14: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] - 254 | fread(tmp.data(), 1, 8, file); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -kmc_tools/kff_info_reader.cpp: In member function 'void CKFFInfoReader::ReadMinimizerSection()': -kmc_tools/kff_info_reader.cpp:289:14: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] - 289 | fread(data_section.minimizer.data(), 1, minimizer_bytes, file); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -kmc_tools/kff_info_reader.cpp:291:14: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] - 291 | fread(tmp.data(), 1, 8, file); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -In file included from kmc_core/params.h:16, - from kmc_core/kb_collector.h:15, - from kmc_core/kb_collector.cpp:11: -kmc_core/queues.h: In member function 'void CBinDesc::init_random()': -kmc_core/queues.h:593:31: warning: 'void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]' is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] - 593 | random_shuffle(random_bins.begin(), random_bins.end()); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /usr/include/c++/13/algorithm:61, - from /usr/include/c++/13/ext/algorithm:63, - from kmc_core/defs.h:112, - from kmc_core/kb_collector.h:14: -/usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here - 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) - | ^~~~~~~~~~~~~~ -kmc_tools/kmer_file_header.cpp: In member function 'bool CKmerFileHeader::is_kff_file(std::string&)': -kmc_tools/kmer_file_header.cpp:117:14: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] - 117 | fread(marker_start, 1, 3, file); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ -kmc_tools/kmer_file_header.cpp:120:14: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] - 120 | fread(marker_end, 1, 3, file); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +In file included from kmc_core/raduls_avx2.cpp:11: +kmc_core/raduls_impl.h:757:2: warning: #warning "building raduls radix sort for avx2" [-Wcpp] + 757 | #warning "building raduls radix sort for avx2" + | ^~~~~~~ +g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/kmc-3.2.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wall -O3 -fsigned-char -std=c++14 -c kmc_core/kff_writer.cpp -o kmc_core/kff_writer.o +g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/kmc-3.2.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wall -O3 -fsigned-char -std=c++14 -c kmc_dump/nc_utils.cpp -o kmc_dump/nc_utils.o +g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/kmc-3.2.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wall -O3 -fsigned-char -std=c++14 -c kmc_dump/kmc_dump.cpp -o kmc_dump/kmc_dump.o In file included from kmc_core/params.h:16, from kmc_core/fastq_reader.h:15, from kmc_core/fastq_reader.cpp:12: @@ -644,20 +566,21 @@ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ -In file included from kmc_core/first_dispatch.h:13, - from kmc_core/raduls_impl.h:24: +In file included from kmc_core/params.h:16, + from kmc_core/kb_storer.h:15, + from kmc_core/kb_storer.cpp:12: kmc_core/queues.h: In member function 'void CBinDesc::init_random()': kmc_core/queues.h:593:31: warning: 'void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]' is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 593 | random_shuffle(random_bins.begin(), random_bins.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, - from kmc_core/raduls_impl.h:19: + from kmc_core/kb_storer.cpp:10: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ In file included from kmc_core/params.h:16, - from kmc_core/bkb_reader.h:15, - from kmc_core/bkb_reader.cpp:11: + from kmc_core/bkb_writer.h:14, + from kmc_core/bkb_writer.cpp:11: kmc_core/queues.h: In member function 'void CBinDesc::init_random()': kmc_core/queues.h:593:31: warning: 'void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]' is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 593 | random_shuffle(random_bins.begin(), random_bins.end()); @@ -669,19 +592,23 @@ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ -In file included from kmc_core/first_dispatch.h:13, - from kmc_core/raduls_impl.h:24: +In file included from kmc_core/params.h:16, + from kmc_core/bkb_reader.h:15, + from kmc_core/bkb_reader.cpp:11: kmc_core/queues.h: In member function 'void CBinDesc::init_random()': kmc_core/queues.h:593:31: warning: 'void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]' is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 593 | random_shuffle(random_bins.begin(), random_bins.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, - from kmc_core/raduls_impl.h:19: + from /usr/include/c++/13/ext/algorithm:63, + from kmc_core/defs.h:112, + from kmc_core/params.h:14: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ In file included from kmc_core/params.h:16, - from kmc_core/develop.cpp:3: + from kmc_core/kb_collector.h:15, + from kmc_core/kb_collector.cpp:11: kmc_core/queues.h: In member function 'void CBinDesc::init_random()': kmc_core/queues.h:593:31: warning: 'void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]' is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 593 | random_shuffle(random_bins.begin(), random_bins.end()); @@ -689,14 +616,12 @@ In file included from /usr/include/c++/13/algorithm:61, from /usr/include/c++/13/ext/algorithm:63, from kmc_core/defs.h:112, - from kmc_core/develop.h:4, - from kmc_core/develop.cpp:2: + from kmc_core/kb_collector.h:14: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ In file included from kmc_core/params.h:16, - from kmc_core/bkb_writer.h:14, - from kmc_core/bkb_writer.cpp:11: + from kmc_core/develop.cpp:3: kmc_core/queues.h: In member function 'void CBinDesc::init_random()': kmc_core/queues.h:593:31: warning: 'void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]' is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 593 | random_shuffle(random_bins.begin(), random_bins.end()); @@ -704,31 +629,33 @@ In file included from /usr/include/c++/13/algorithm:61, from /usr/include/c++/13/ext/algorithm:63, from kmc_core/defs.h:112, - from kmc_core/params.h:14: + from kmc_core/develop.h:4, + from kmc_core/develop.cpp:2: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ -In file included from kmc_core/params.h:16, - from kmc_core/kb_storer.h:15, - from kmc_core/kb_storer.cpp:12: +In file included from kmc_core/first_dispatch.h:13, + from kmc_core/raduls_impl.h:24: kmc_core/queues.h: In member function 'void CBinDesc::init_random()': kmc_core/queues.h:593:31: warning: 'void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]' is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 593 | random_shuffle(random_bins.begin(), random_bins.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, - from kmc_core/kb_storer.cpp:10: + from kmc_core/raduls_impl.h:19: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ In file included from kmc_core/params.h:16, - from kmc_core/kb_completer.h:14, - from kmc_core/kb_completer.cpp:12: + from kmc_core/kmc.h:15, + from kmc_core/kmc_runner.cpp:12: kmc_core/queues.h: In member function 'void CBinDesc::init_random()': kmc_core/queues.h:593:31: warning: 'void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]' is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 593 | random_shuffle(random_bins.begin(), random_bins.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, - from kmc_core/kb_completer.cpp:10: + from /usr/include/c++/13/ext/algorithm:63, + from kmc_core/defs.h:112, + from kmc_core/kmc.h:14: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ @@ -738,40 +665,51 @@ kmc_core/queues.h:593:31: warning: 'void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]' is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 593 | random_shuffle(random_bins.begin(), random_bins.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from kmc_core/params.h:16, + from kmc_core/kb_collector.h:15, + from kmc_core/splitter.h:16, + from kmc_core/splitter.cpp:11: +kmc_core/queues.h: In member function 'void CBinDesc::init_random()': +kmc_core/queues.h:593:31: warning: 'void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]' is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] + 593 | random_shuffle(random_bins.begin(), random_bins.end()); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from kmc_core/raduls_impl.h:19: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ -In file included from kmc_core/params.h:16, - from kmc_core/kmc.h:15, - from kmc_core/kmc_runner.cpp:12: +In file included from /usr/include/c++/13/algorithm:61, + from /usr/include/c++/13/ext/algorithm:63, + from kmc_core/defs.h:112, + from kmc_core/splitter.h:14: +/usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here + 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) + | ^~~~~~~~~~~~~~ +g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/kmc-3.2.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wall -O3 -fsigned-char -std=c++14 -c kmc_tools/kmer_file_header.cpp -o kmc_tools/kmer_file_header.o +In file included from kmc_core/first_dispatch.h:13, + from kmc_core/raduls_impl.h:24: kmc_core/queues.h: In member function 'void CBinDesc::init_random()': kmc_core/queues.h:593:31: warning: 'void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]' is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 593 | random_shuffle(random_bins.begin(), random_bins.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, - from /usr/include/c++/13/ext/algorithm:63, - from kmc_core/defs.h:112, - from kmc_core/kmc.h:14: + from kmc_core/raduls_impl.h:19: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ In file included from kmc_core/params.h:16, - from kmc_core/kb_collector.h:15, - from kmc_core/splitter.h:16, - from kmc_core/splitter.cpp:11: + from kmc_core/kb_completer.h:14, + from kmc_core/kb_completer.cpp:12: kmc_core/queues.h: In member function 'void CBinDesc::init_random()': kmc_core/queues.h:593:31: warning: 'void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]' is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 593 | random_shuffle(random_bins.begin(), random_bins.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, - from /usr/include/c++/13/ext/algorithm:63, - from kmc_core/defs.h:112, - from kmc_core/splitter.h:14: + from kmc_core/kb_completer.cpp:10: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ +g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/kmc-3.2.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wall -O3 -fsigned-char -std=c++14 -c kmc_tools/kmc_tools.cpp -o kmc_tools/kmc_tools.o In file included from kmc_core/first_dispatch.h:13, from kmc_core/raduls_impl.h:24: kmc_core/queues.h: In member function 'void CBinDesc::init_random()': @@ -783,9 +721,107 @@ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ +g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/kmc-3.2.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wall -O3 -fsigned-char -std=c++14 -c kmc_tools/nc_utils.cpp -o kmc_tools/nc_utils.o +kmc_tools/kmer_file_header.cpp: In member function 'bool CKmerFileHeader::is_kff_file(std::string&)': +kmc_tools/kmer_file_header.cpp:117:14: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] + 117 | fread(marker_start, 1, 3, file); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ +kmc_tools/kmer_file_header.cpp:120:14: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] + 120 | fread(marker_end, 1, 3, file); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/kmc-3.2.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wall -O3 -fsigned-char -std=c++14 -c kmc_tools/parameters_parser.cpp -o kmc_tools/parameters_parser.o +g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/kmc-3.2.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wall -O3 -fsigned-char -std=c++14 -c kmc_tools/parser.cpp -o kmc_tools/parser.o +g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/kmc-3.2.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wall -O3 -fsigned-char -std=c++14 -c kmc_tools/tokenizer.cpp -o kmc_tools/tokenizer.o +g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/kmc-3.2.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wall -O3 -fsigned-char -std=c++14 -c kmc_tools/fastq_filter.cpp -o kmc_tools/fastq_filter.o +g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/kmc-3.2.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wall -O3 -fsigned-char -std=c++14 -c kmc_tools/fastq_reader.cpp -o kmc_tools/fastq_reader.o +g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/kmc-3.2.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wall -O3 -fsigned-char -std=c++14 -c kmc_tools/fastq_writer.cpp -o kmc_tools/fastq_writer.o +g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/kmc-3.2.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wall -O3 -fsigned-char -std=c++14 -c kmc_tools/percent_progress.cpp -o kmc_tools/percent_progress.o +g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/kmc-3.2.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wall -O3 -fsigned-char -std=c++14 -c kmc_tools/kff_info_reader.cpp -o kmc_tools/kff_info_reader.o +kmc_tools/kff_info_reader.cpp: In constructor 'CKFFInfoReader::CKFFInfoReader(const std::string&)': +kmc_tools/kff_info_reader.cpp:35:14: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] + 35 | fread(marker, 1, 3, file); + | ~~~~~^~~~~~~~~~~~~~~~~~~~ +kmc_tools/kff_info_reader.cpp:40:14: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] + 40 | fread(marker, 1, 3, file); + | ~~~~~^~~~~~~~~~~~~~~~~~~~ +kmc_tools/kff_info_reader.cpp:46:14: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] + 46 | fread(footer_size_str, 1, 12, file); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +kmc_tools/kff_info_reader.cpp:55:22: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] + 55 | fread(tmp.data(), 1, 8, file); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +kmc_tools/kff_info_reader.cpp:62:22: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] + 62 | fread(tmp.data(), 1, 1, file); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +kmc_tools/kff_info_reader.cpp:68:22: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] + 68 | fread(tmp.data(), 1, 8, file); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +kmc_tools/kff_info_reader.cpp:77:30: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] + 77 | fread(tmp.data(), 1, 8, file); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +kmc_tools/kff_info_reader.cpp:90:14: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] + 90 | fread(tmp.data(), 1, 1, file); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +kmc_tools/kff_info_reader.cpp:93:14: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] + 93 | fread(tmp.data(), 1, 1, file); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +kmc_tools/kff_info_reader.cpp:97:14: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] + 97 | fread(tmp.data(), 1, 1, file); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +kmc_tools/kff_info_reader.cpp:100:14: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] + 100 | fread(tmp.data(), 1, 1, file); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +kmc_tools/kff_info_reader.cpp:106:14: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] + 106 | fread(tmp.data(), 1, 1, file); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +kmc_tools/kff_info_reader.cpp:112:14: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] + 112 | fread(tmp.data(), 1, sizeof(free_size), file); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +kmc_tools/kff_info_reader.cpp:117:14: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] + 117 | fread(tmp.data(), 1, 1, file); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +kmc_tools/kff_info_reader.cpp:137:22: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] + 137 | fread(tmp.data(), 1, 1, file); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +kmc_tools/kff_info_reader.cpp:142:22: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] + 142 | fread(tmp.data(), 1, 8, file); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +kmc_tools/kff_info_reader.cpp:151:30: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] + 151 | fread(tmp.data(), 1, 1, file); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +kmc_tools/kff_info_reader.cpp:155:30: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] + 155 | fread(tmp.data(), 1, 8, file); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +kmc_tools/kff_info_reader.cpp:162:22: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] + 162 | fread(tmp.data(), 1, 8, file); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +kmc_tools/kff_info_reader.cpp:174:22: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] + 174 | fread(tmp.data(), 1, 1, file); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +kmc_tools/kff_info_reader.cpp:183:22: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] + 183 | fread(tmp.data(), 1, 1, file); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +kmc_tools/kff_info_reader.cpp: In member function 'void CKFFInfoReader::ReadVariableSection()': +kmc_tools/kff_info_reader.cpp:208:14: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] + 208 | fread(tmp.data(), 1, sizeof(uint64_t), file); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +kmc_tools/kff_info_reader.cpp:215:22: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] + 215 | fread(tmp.data(), 1, sizeof(uint64_t), file); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +kmc_tools/kff_info_reader.cpp: In member function 'void CKFFInfoReader::ReadRawSection()': +kmc_tools/kff_info_reader.cpp:254:14: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] + 254 | fread(tmp.data(), 1, 8, file); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +kmc_tools/kff_info_reader.cpp: In member function 'void CKFFInfoReader::ReadMinimizerSection()': +kmc_tools/kff_info_reader.cpp:289:14: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] + 289 | fread(data_section.minimizer.data(), 1, minimizer_bytes, file); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +kmc_tools/kff_info_reader.cpp:291:14: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] + 291 | fread(tmp.data(), 1, 8, file); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ mkdir -p bin -ar rcs libkmc.a kmc_api/mmer.o kmc_api/kmc_file.o kmc_api/kmer_api.o g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/kmc-3.2.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wall -O3 -fsigned-char -std=c++14 -Wl,-z,relro -Wl,-z,now -lm -O3 -std=c++14 -lz -o bin/kmc_dump kmc_dump/nc_utils.o kmc_dump/kmc_dump.o kmc_api/mmer.o kmc_api/kmc_file.o kmc_api/kmer_api.o +ar rcs libkmc.a kmc_api/mmer.o kmc_api/kmc_file.o kmc_api/kmer_api.o ranlib libkmc.a In file included from kmc_tools/db_reader_factory.h:8, from kmc_tools/expression_node.h:19, @@ -1044,7 +1080,7 @@ make[2]: Leaving directory '/build/reproducible-path/kmc-3.2.4+dfsg' make[1]: Leaving directory '/build/reproducible-path/kmc-3.2.4+dfsg' dh_auto_test - rm -fr -- /tmp/dh-xdg-rundir-28eN50QT + rm -fr -- /tmp/dh-xdg-rundir-BCNfGLgS create-stamp debian/debhelper-build-stamp dh_prep rm -f -- debian/kmc.substvars debian/libkmc-dev.substvars @@ -1065,10 +1101,10 @@ install -m0755 -d debian/libkmc-dev/usr/share/doc/libkmc-dev install -p -m0644 debian/copyright debian/libkmc-dev/usr/share/doc/libkmc-dev/copyright dh_installchangelogs - install -m0755 -d debian/kmc/usr/share/doc/kmc - install -p -m0644 debian/.debhelper/generated/kmc/dh_installchangelogs.dch.trimmed debian/kmc/usr/share/doc/kmc/changelog.Debian install -m0755 -d debian/libkmc-dev/usr/share/doc/libkmc-dev install -p -m0644 debian/.debhelper/generated/libkmc-dev/dh_installchangelogs.dch.trimmed debian/libkmc-dev/usr/share/doc/libkmc-dev/changelog.Debian + install -m0755 -d debian/kmc/usr/share/doc/kmc + install -p -m0644 debian/.debhelper/generated/kmc/dh_installchangelogs.dch.trimmed debian/kmc/usr/share/doc/kmc/changelog.Debian rm -f debian/kmc.debhelper.log debian/libkmc-dev.debhelper.log debian/rules override_dh_installman make[1]: Entering directory '/build/reproducible-path/kmc-3.2.4+dfsg' @@ -1106,8 +1142,8 @@ install -p -m0644 ./debian/man/kmc_tools-union.1 debian/kmc/usr/share/man/man1/kmc_tools-union.1 install -m0755 -d debian/kmc/usr/share/man/man1/ install -p -m0644 ./debian/man/kmc_tools.1 debian/kmc/usr/share/man/man1/kmc_tools.1 - man-recode --to-code UTF-8 --suffix .dh-new debian/kmc/usr/share/man/man1/kmc_dump.1 man-recode --to-code UTF-8 --suffix .dh-new debian/kmc/usr/share/man/man1/kmc.1 + man-recode --to-code UTF-8 --suffix .dh-new debian/kmc/usr/share/man/man1/kmc_dump.1 man-recode --to-code UTF-8 --suffix .dh-new debian/kmc/usr/share/man/man1/kmc_tools-compact.1 man-recode --to-code UTF-8 --suffix .dh-new debian/kmc/usr/share/man/man1/kmc_tools-complex.1 man-recode --to-code UTF-8 --suffix .dh-new debian/kmc/usr/share/man/man1/kmc_tools-counters_subtract.1 @@ -1119,32 +1155,32 @@ man-recode --to-code UTF-8 --suffix .dh-new debian/kmc/usr/share/man/man1/kmc_tools-sort.1 man-recode --to-code UTF-8 --suffix .dh-new debian/kmc/usr/share/man/man1/kmc_tools-union.1 man-recode --to-code UTF-8 --suffix .dh-new debian/kmc/usr/share/man/man1/kmc_tools.1 - mv debian/kmc/usr/share/man/man1/kmc_dump.1.dh-new debian/kmc/usr/share/man/man1/kmc_dump.1 - chmod 0644 -- debian/kmc/usr/share/man/man1/kmc_dump.1 + mv debian/kmc/usr/share/man/man1/kmc_tools-compact.1.dh-new debian/kmc/usr/share/man/man1/kmc_tools-compact.1 + chmod 0644 -- debian/kmc/usr/share/man/man1/kmc_tools-compact.1 mv debian/kmc/usr/share/man/man1/kmc.1.dh-new debian/kmc/usr/share/man/man1/kmc.1 chmod 0644 -- debian/kmc/usr/share/man/man1/kmc.1 - mv debian/kmc/usr/share/man/man1/kmc_tools-complex.1.dh-new debian/kmc/usr/share/man/man1/kmc_tools-complex.1 - chmod 0644 -- debian/kmc/usr/share/man/man1/kmc_tools-complex.1 mv debian/kmc/usr/share/man/man1/kmc_tools-counters_subtract.1.dh-new debian/kmc/usr/share/man/man1/kmc_tools-counters_subtract.1 chmod 0644 -- debian/kmc/usr/share/man/man1/kmc_tools-counters_subtract.1 - mv debian/kmc/usr/share/man/man1/kmc_tools-compact.1.dh-new debian/kmc/usr/share/man/man1/kmc_tools-compact.1 - chmod 0644 -- debian/kmc/usr/share/man/man1/kmc_tools-compact.1 + mv debian/kmc/usr/share/man/man1/kmc_tools-complex.1.dh-new debian/kmc/usr/share/man/man1/kmc_tools-complex.1 + chmod 0644 -- debian/kmc/usr/share/man/man1/kmc_tools-complex.1 + mv debian/kmc/usr/share/man/man1/kmc_dump.1.dh-new debian/kmc/usr/share/man/man1/kmc_dump.1 + chmod 0644 -- debian/kmc/usr/share/man/man1/kmc_dump.1 + mv debian/kmc/usr/share/man/man1/kmc_tools-dump.1.dh-new debian/kmc/usr/share/man/man1/kmc_tools-dump.1 + chmod 0644 -- debian/kmc/usr/share/man/man1/kmc_tools-dump.1 + mv debian/kmc/usr/share/man/man1/kmc_tools-intersect.1.dh-new debian/kmc/usr/share/man/man1/kmc_tools-intersect.1 + chmod 0644 -- debian/kmc/usr/share/man/man1/kmc_tools-intersect.1 mv debian/kmc/usr/share/man/man1/kmc_tools-histogram.1.dh-new debian/kmc/usr/share/man/man1/kmc_tools-histogram.1 chmod 0644 -- debian/kmc/usr/share/man/man1/kmc_tools-histogram.1 mv debian/kmc/usr/share/man/man1/kmc_tools-filter.1.dh-new debian/kmc/usr/share/man/man1/kmc_tools-filter.1 chmod 0644 -- debian/kmc/usr/share/man/man1/kmc_tools-filter.1 - mv debian/kmc/usr/share/man/man1/kmc_tools-intersect.1.dh-new debian/kmc/usr/share/man/man1/kmc_tools-intersect.1 - chmod 0644 -- debian/kmc/usr/share/man/man1/kmc_tools-intersect.1 mv debian/kmc/usr/share/man/man1/kmc_tools-kmers_subtract.1.dh-new debian/kmc/usr/share/man/man1/kmc_tools-kmers_subtract.1 chmod 0644 -- debian/kmc/usr/share/man/man1/kmc_tools-kmers_subtract.1 - mv debian/kmc/usr/share/man/man1/kmc_tools-dump.1.dh-new debian/kmc/usr/share/man/man1/kmc_tools-dump.1 - chmod 0644 -- debian/kmc/usr/share/man/man1/kmc_tools-dump.1 - mv debian/kmc/usr/share/man/man1/kmc_tools.1.dh-new debian/kmc/usr/share/man/man1/kmc_tools.1 - chmod 0644 -- debian/kmc/usr/share/man/man1/kmc_tools.1 mv debian/kmc/usr/share/man/man1/kmc_tools-sort.1.dh-new debian/kmc/usr/share/man/man1/kmc_tools-sort.1 chmod 0644 -- debian/kmc/usr/share/man/man1/kmc_tools-sort.1 mv debian/kmc/usr/share/man/man1/kmc_tools-union.1.dh-new debian/kmc/usr/share/man/man1/kmc_tools-union.1 chmod 0644 -- debian/kmc/usr/share/man/man1/kmc_tools-union.1 + mv debian/kmc/usr/share/man/man1/kmc_tools.1.dh-new debian/kmc/usr/share/man/man1/kmc_tools.1 + chmod 0644 -- debian/kmc/usr/share/man/man1/kmc_tools.1 make[1]: Leaving directory '/build/reproducible-path/kmc-3.2.4+dfsg' dh_perl dh_link @@ -1161,16 +1197,16 @@ dh_fixperms find debian/kmc ! -type l -a -true -a -true -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s find debian/libkmc-dev ! -type l -a -true -a -true -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s - find debian/kmc/usr/share/doc -type f -a -true -a ! -regex 'debian/kmc/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644 find debian/libkmc-dev/usr/share/doc -type f -a -true -a ! -regex 'debian/libkmc-dev/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644 - find debian/kmc/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 + find debian/kmc/usr/share/doc -type f -a -true -a ! -regex 'debian/kmc/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644 find debian/libkmc-dev/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 - find debian/kmc/usr/share/man -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/libkmc-dev/usr/include -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 - find debian/kmc -type f \( -name '*.so.*' -o -name '*.so' -o -name '*.la' -o -name '*.a' -o -name '*.js' -o -name '*.css' -o -name '*.scss' -o -name '*.sass' -o -name '*.jpeg' -o -name '*.jpg' -o -name '*.png' -o -name '*.gif' -o -name '*.cmxs' -o -name '*.node' \) -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 + find debian/kmc/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 + find debian/kmc/usr/share/man -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/libkmc-dev -type f \( -name '*.so.*' -o -name '*.so' -o -name '*.la' -o -name '*.a' -o -name '*.js' -o -name '*.css' -o -name '*.scss' -o -name '*.sass' -o -name '*.jpeg' -o -name '*.jpg' -o -name '*.png' -o -name '*.gif' -o -name '*.cmxs' -o -name '*.node' \) -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 - find debian/kmc/usr/bin -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod a+x find debian/libkmc-dev/usr/lib -type f -name '*.ali' -a -true -a -true -print0 2>/dev/null | xargs -0r chmod uga-w + find debian/kmc -type f \( -name '*.so.*' -o -name '*.so' -o -name '*.la' -o -name '*.a' -o -name '*.js' -o -name '*.css' -o -name '*.scss' -o -name '*.sass' -o -name '*.jpeg' -o -name '*.jpg' -o -name '*.png' -o -name '*.gif' -o -name '*.cmxs' -o -name '*.node' \) -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 + find debian/kmc/usr/bin -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod a+x dh_missing dh_dwz -a install -m0755 -d debian/kmc/usr/lib/debug/.dwz/x86_64-linux-gnu @@ -1179,14 +1215,9 @@ chmod 0644 -- debian/kmc/usr/lib/debug/.dwz/x86_64-linux-gnu/kmc.debug dh_strip -a strip --strip-debug --remove-section=.comment --remove-section=.note --enable-deterministic-archives -R .gnu.lto_\* -R .gnu.debuglto_\* -N __gnu_lto_slim -N __gnu_lto_v1 debian/libkmc-dev/usr/lib/x86_64-linux-gnu/libkmc_core.a - install -m0755 -d debian/.debhelper/kmc/dbgsym-root/usr/lib/debug/.build-id/ff - objcopy --only-keep-debug --compress-debug-sections debian/kmc/usr/bin/kmc debian/.debhelper/kmc/dbgsym-root/usr/lib/debug/.build-id/ff/71ca0c22d17bedb1ccc0414b47e8ef0ee7a89f.debug - strip --strip-debug --remove-section=.comment --remove-section=.note --enable-deterministic-archives -R .gnu.lto_\* -R .gnu.debuglto_\* -N __gnu_lto_slim -N __gnu_lto_v1 debian/libkmc-dev/usr/lib/x86_64-linux-gnu/libkmc.a - chmod 0644 -- debian/.debhelper/kmc/dbgsym-root/usr/lib/debug/.build-id/ff/71ca0c22d17bedb1ccc0414b47e8ef0ee7a89f.debug - strip --remove-section=.comment --remove-section=.note debian/kmc/usr/bin/kmc - objcopy --add-gnu-debuglink debian/.debhelper/kmc/dbgsym-root/usr/lib/debug/.build-id/ff/71ca0c22d17bedb1ccc0414b47e8ef0ee7a89f.debug debian/kmc/usr/bin/kmc install -m0755 -d debian/.debhelper/kmc/dbgsym-root/usr/lib/debug/.build-id/a2 objcopy --only-keep-debug --compress-debug-sections debian/kmc/usr/bin/kmc_tools debian/.debhelper/kmc/dbgsym-root/usr/lib/debug/.build-id/a2/7a70ad2cdfbf5871dc859c2d5b4faa1b4272c7.debug + strip --strip-debug --remove-section=.comment --remove-section=.note --enable-deterministic-archives -R .gnu.lto_\* -R .gnu.debuglto_\* -N __gnu_lto_slim -N __gnu_lto_v1 debian/libkmc-dev/usr/lib/x86_64-linux-gnu/libkmc.a chmod 0644 -- debian/.debhelper/kmc/dbgsym-root/usr/lib/debug/.build-id/a2/7a70ad2cdfbf5871dc859c2d5b4faa1b4272c7.debug strip --remove-section=.comment --remove-section=.note debian/kmc/usr/bin/kmc_tools objcopy --add-gnu-debuglink debian/.debhelper/kmc/dbgsym-root/usr/lib/debug/.build-id/a2/7a70ad2cdfbf5871dc859c2d5b4faa1b4272c7.debug debian/kmc/usr/bin/kmc_tools @@ -1195,6 +1226,11 @@ chmod 0644 -- debian/.debhelper/kmc/dbgsym-root/usr/lib/debug/.build-id/de/ec18fc617989b8f04fefda2531efcb6b7bf8e2.debug strip --remove-section=.comment --remove-section=.note debian/kmc/usr/bin/kmc_dump objcopy --add-gnu-debuglink debian/.debhelper/kmc/dbgsym-root/usr/lib/debug/.build-id/de/ec18fc617989b8f04fefda2531efcb6b7bf8e2.debug debian/kmc/usr/bin/kmc_dump + install -m0755 -d debian/.debhelper/kmc/dbgsym-root/usr/lib/debug/.build-id/ff + objcopy --only-keep-debug --compress-debug-sections debian/kmc/usr/bin/kmc debian/.debhelper/kmc/dbgsym-root/usr/lib/debug/.build-id/ff/71ca0c22d17bedb1ccc0414b47e8ef0ee7a89f.debug + chmod 0644 -- debian/.debhelper/kmc/dbgsym-root/usr/lib/debug/.build-id/ff/71ca0c22d17bedb1ccc0414b47e8ef0ee7a89f.debug + strip --remove-section=.comment --remove-section=.note debian/kmc/usr/bin/kmc + objcopy --add-gnu-debuglink debian/.debhelper/kmc/dbgsym-root/usr/lib/debug/.build-id/ff/71ca0c22d17bedb1ccc0414b47e8ef0ee7a89f.debug debian/kmc/usr/bin/kmc install -m0755 -d debian/.debhelper/kmc/dbgsym-root/usr/lib/debug/.dwz cp --reflink=auto -a debian/kmc/usr/lib/debug/.dwz/x86_64-linux-gnu debian/.debhelper/kmc/dbgsym-root/usr/lib/debug/.dwz rm -fr debian/kmc/usr/lib/debug/.dwz @@ -1207,7 +1243,7 @@ rm -f debian/libkmc-dev/DEBIAN/shlibs dh_shlibdeps -a install -m0755 -d debian/kmc/DEBIAN - dpkg-shlibdeps -Tdebian/kmc.substvars debian/kmc/usr/bin/kmc debian/kmc/usr/bin/kmc_tools debian/kmc/usr/bin/kmc_dump + dpkg-shlibdeps -Tdebian/kmc.substvars debian/kmc/usr/bin/kmc_tools debian/kmc/usr/bin/kmc_dump debian/kmc/usr/bin/kmc dh_installdeb install -m0755 -d debian/kmc/DEBIAN install -m0755 -d debian/libkmc-dev/DEBIAN @@ -1215,37 +1251,37 @@ debian/rules override_dh_gencontrol make[1]: Entering directory '/build/reproducible-path/kmc-3.2.4+dfsg' dh_gencontrol -- -Vsimde:Built-Using="simde (= 0.8.2-1), " - install -m0755 -d debian/libkmc-dev/DEBIAN - echo misc:Depends= >> debian/libkmc-dev.substvars - echo misc:Pre-Depends= >> debian/libkmc-dev.substvars - dpkg-gencontrol -plibkmc-dev -ldebian/changelog -Tdebian/libkmc-dev.substvars -cdebian/control -Pdebian/libkmc-dev "-Vsimde:Built-Using=simde (= 0.8.2-1), " install -m0755 -d debian/kmc/DEBIAN echo misc:Depends= >> debian/kmc.substvars echo misc:Pre-Depends= >> debian/kmc.substvars install -m0755 -d debian/.debhelper/kmc/dbgsym-root/DEBIAN dpkg-gencontrol -pkmc -ldebian/changelog -Tdebian/kmc.substvars -cdebian/control -Pdebian/.debhelper/kmc/dbgsym-root "-Vsimde:Built-Using=simde (= 0.8.2-1), " -UPre-Depends -URecommends -USuggests -UEnhances -UProvides -UEssential -UConflicts -DPriority=optional -UHomepage -UImportant -DAuto-Built-Package=debug-symbols -UProtected -UBuilt-Using -UStatic-Built-Using -DPackage=kmc-dbgsym "-DDepends=kmc (= \${binary:Version})" "-DDescription=debug symbols for kmc" "-DBuild-Ids=a27a70ad2cdfbf5871dc859c2d5b4faa1b4272c7 deec18fc617989b8f04fefda2531efcb6b7bf8e2 ff71ca0c22d17bedb1ccc0414b47e8ef0ee7a89f" -DSection=debug -UMulti-Arch -UReplaces -UBreaks -dpkg-gencontrol: warning: Depends field of package libkmc-dev: substitution variable ${shlibs:Depends} used, but is not defined - chmod 0644 -- debian/libkmc-dev/DEBIAN/control + install -m0755 -d debian/libkmc-dev/DEBIAN + echo misc:Depends= >> debian/libkmc-dev.substvars + echo misc:Pre-Depends= >> debian/libkmc-dev.substvars + dpkg-gencontrol -plibkmc-dev -ldebian/changelog -Tdebian/libkmc-dev.substvars -cdebian/control -Pdebian/libkmc-dev "-Vsimde:Built-Using=simde (= 0.8.2-1), " chmod 0644 -- debian/.debhelper/kmc/dbgsym-root/DEBIAN/control dpkg-gencontrol -pkmc -ldebian/changelog -Tdebian/kmc.substvars -cdebian/control -Pdebian/kmc "-Vsimde:Built-Using=simde (= 0.8.2-1), " +dpkg-gencontrol: warning: Depends field of package libkmc-dev: substitution variable ${shlibs:Depends} used, but is not defined + chmod 0644 -- debian/libkmc-dev/DEBIAN/control chmod 0644 -- debian/kmc/DEBIAN/control make[1]: Leaving directory '/build/reproducible-path/kmc-3.2.4+dfsg' dh_md5sums - install -m0755 -d debian/kmc/DEBIAN install -m0755 -d debian/libkmc-dev/DEBIAN - cd debian/kmc >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums + install -m0755 -d debian/kmc/DEBIAN cd debian/libkmc-dev >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums + cd debian/kmc >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums chmod 0644 -- debian/kmc/DEBIAN/md5sums install -m0755 -d debian/.debhelper/kmc/dbgsym-root/DEBIAN - cd debian/.debhelper/kmc/dbgsym-root >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums chmod 0644 -- debian/libkmc-dev/DEBIAN/md5sums + cd debian/.debhelper/kmc/dbgsym-root >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums chmod 0644 -- debian/.debhelper/kmc/dbgsym-root/DEBIAN/md5sums dh_builddeb dpkg-deb --root-owner-group --build debian/kmc .. dpkg-deb --root-owner-group --build debian/.debhelper/kmc/dbgsym-root .. +dpkg-deb: building package 'kmc-dbgsym' in '../kmc-dbgsym_3.2.4+dfsg-1_amd64.deb'. dpkg-deb --root-owner-group --build debian/libkmc-dev .. dpkg-deb: building package 'kmc' in '../kmc_3.2.4+dfsg-1_amd64.deb'. -dpkg-deb: building package 'kmc-dbgsym' in '../kmc-dbgsym_3.2.4+dfsg-1_amd64.deb'. dpkg-deb: building package 'libkmc-dev' in '../libkmc-dev_3.2.4+dfsg-1_amd64.deb'. dpkg-genbuildinfo --build=binary -O../kmc_3.2.4+dfsg-1_amd64.buildinfo dpkg-genchanges --build=binary -O../kmc_3.2.4+dfsg-1_amd64.changes @@ -1254,12 +1290,14 @@ dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: including full source code in upload I: copying local configuration +I: user script /srv/workspace/pbuilder/1815852/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/1815852/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/4015634 and its subdirectories -I: Current time: Wed Jul 2 17:32:28 -12 2025 -I: pbuilder-time-stamp: 1751520748 +I: removing directory /srv/workspace/pbuilder/1815852 and its subdirectories +I: Current time: Fri May 31 13:17:58 +14 2024 +I: pbuilder-time-stamp: 1717111078