Diff of the two buildlogs: -- --- b1/build.log 2024-05-21 01:39:23.454909433 +0000 +++ b2/build.log 2024-05-21 01:47:26.294364540 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Sun Jun 22 19:59:04 -12 2025 -I: pbuilder-time-stamp: 1750665544 +I: Current time: Tue May 21 15:39:27 +14 2024 +I: pbuilder-time-stamp: 1716255567 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz] I: copying local configuration @@ -26,52 +26,84 @@ dpkg-source: info: unpacking voronota_1.22.3149-2.debian.tar.xz I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/2355929/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/1600373/tmp/hooks/D01_modify_environment starting +debug: Running on ionos11-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 21 01:39 /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/1600373/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/1600373/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='759e513de9a7472e8e1ba283245b9ccf' - 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='2355929' - PS1='# ' - PS2='> ' + INVOCATION_ID=76394dc657e443e3a7dd3fa315234426 + 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=1600373 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.CFLUyaux/pbuilderrc_h6ZJ --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.CFLUyaux/b1 --logfile b1/build.log voronota_1.22.3149-2.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.CFLUyaux/pbuilderrc_7q6T --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.CFLUyaux/b2 --logfile b2/build.log voronota_1.22.3149-2.dsc' + SUDO_GID=111 + SUDO_UID=106 + 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 6.6.13+bpo-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.6.13-1~bpo12+1 (2024-02-15) 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 22 14:05 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/2355929/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 May 19 07:43 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/1600373/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -146,7 +178,7 @@ Get: 35 http://deb.debian.org/debian unstable/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 36 http://deb.debian.org/debian unstable/main amd64 debhelper all 13.15.3 [901 kB] Get: 37 http://deb.debian.org/debian unstable/main amd64 help2man amd64 1.49.3 [198 kB] -Fetched 19.4 MB in 0s (74.3 MB/s) +Fetched 19.4 MB in 1s (20.4 MB/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 ... 19718 files and directories currently installed.) @@ -309,7 +341,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/voronota-1.22.3149/ && 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 > ../voronota_1.22.3149-2_source.changes +I: user script /srv/workspace/pbuilder/1600373/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for unstable +I: user script /srv/workspace/pbuilder/1600373/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/voronota-1.22.3149/ && 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 > ../voronota_1.22.3149-2_source.changes dpkg-buildpackage: info: source package voronota dpkg-buildpackage: info: source version 1.22.3149-2 dpkg-buildpackage: info: source distribution unstable @@ -449,7 +485,7 @@ config.status: creating Makefile config.status: executing depfiles commands dh_auto_build - make -j42 + make -j20 make[1]: Entering directory '/build/reproducible-path/voronota-1.22.3149' g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/voronota-1.22.3149=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c -o voronota.o `test -f 'src/voronota.cpp' || echo './'`src/voronota.cpp g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/voronota-1.22.3149=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c -o mode_calculate_contacts.o `test -f 'src/modes/mode_calculate_contacts.cpp' || echo './'`src/modes/mode_calculate_contacts.cpp @@ -471,28 +507,6 @@ g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/voronota-1.22.3149=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c -o mode_demo_ses.o `test -f 'src/modes/mode_demo_ses.cpp' || echo './'`src/modes/mode_demo_ses.cpp g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/voronota-1.22.3149=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c -o mode_query_balls_clashes.o `test -f 'src/modes/mode_query_balls_clashes.cpp' || echo './'`src/modes/mode_query_balls_clashes.cpp g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/voronota-1.22.3149=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c -o mode_simulate_potential_for_membrane_proteins.o `test -f 'src/modes/mode_simulate_potential_for_membrane_proteins.cpp' || echo './'`src/modes/mode_simulate_potential_for_membrane_proteins.cpp -g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/voronota-1.22.3149=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c -o mode_vectorize_contact_environments.o `test -f 'src/modes/mode_vectorize_contact_environments.cpp' || echo './'`src/modes/mode_vectorize_contact_environments.cpp -g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/voronota-1.22.3149=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c -o mode_calculate_path_centralities.o `test -f 'src/modes/mode_calculate_path_centralities.cpp' || echo './'`src/modes/mode_calculate_path_centralities.cpp -g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/voronota-1.22.3149=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c -o mode_write_balls_to_atoms_file.o `test -f 'src/modes/mode_write_balls_to_atoms_file.cpp' || echo './'`src/modes/mode_write_balls_to_atoms_file.cpp -g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/voronota-1.22.3149=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c -o mode_draw_contacts.o `test -f 'src/modes/mode_draw_contacts.cpp' || echo './'`src/modes/mode_draw_contacts.cpp -g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/voronota-1.22.3149=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c -o mode_plot_contacts.o `test -f 'src/modes/mode_plot_contacts.cpp' || echo './'`src/modes/mode_plot_contacts.cpp -g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/voronota-1.22.3149=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c -o mode_expand_descriptors.o `test -f 'src/modes/mode_expand_descriptors.cpp' || echo './'`src/modes/mode_expand_descriptors.cpp -g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/voronota-1.22.3149=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c -o mode_query_contacts_depth_values.o `test -f 'src/modes/mode_query_contacts_depth_values.cpp' || echo './'`src/modes/mode_query_contacts_depth_values.cpp -g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/voronota-1.22.3149=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c -o mode_score_scores.o `test -f 'src/modes/mode_score_scores.cpp' || echo './'`src/modes/mode_score_scores.cpp -g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/voronota-1.22.3149=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c -o mode_score_contacts_potentials_stats.o `test -f 'src/modes/mode_score_contacts_potentials_stats.cpp' || echo './'`src/modes/mode_score_contacts_potentials_stats.cpp -g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/voronota-1.22.3149=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c -o mode_score_contacts_energy.o `test -f 'src/modes/mode_score_contacts_energy.cpp' || echo './'`src/modes/mode_score_contacts_energy.cpp -g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/voronota-1.22.3149=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c -o mode_query_balls_sequences_pairings_stats.o `test -f 'src/modes/mode_query_balls_sequences_pairings_stats.cpp' || echo './'`src/modes/mode_query_balls_sequences_pairings_stats.cpp -g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/voronota-1.22.3149=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c -o mode_vectorize_contacts.o `test -f 'src/modes/mode_vectorize_contacts.cpp' || echo './'`src/modes/mode_vectorize_contacts.cpp -g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/voronota-1.22.3149=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c -o mode_draw_balls.o `test -f 'src/modes/mode_draw_balls.cpp' || echo './'`src/modes/mode_draw_balls.cpp -g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/voronota-1.22.3149=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c -o mode_vectorize_points.o `test -f 'src/modes/mode_vectorize_points.cpp' || echo './'`src/modes/mode_vectorize_points.cpp -g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/voronota-1.22.3149=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c -o mode_rotational_optimization_demo.o `test -f 'src/modes/mode_rotational_optimization_demo.cpp' || echo './'`src/modes/mode_rotational_optimization_demo.cpp -g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/voronota-1.22.3149=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c -o mode_run_script.o `test -f 'src/modes/mode_run_script.cpp' || echo './'`src/modes/mode_run_script.cpp -g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/voronota-1.22.3149=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c -o mode_place_membrane.o `test -f 'src/modes/mode_place_membrane.cpp' || echo './'`src/modes/mode_place_membrane.cpp -g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/voronota-1.22.3149=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c -o mode_score_contacts_energy_stats.o `test -f 'src/modes/mode_score_contacts_energy_stats.cpp' || echo './'`src/modes/mode_score_contacts_energy_stats.cpp -g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/voronota-1.22.3149=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c -o mode_query_contacts.o `test -f 'src/modes/mode_query_contacts.cpp' || echo './'`src/modes/mode_query_contacts.cpp -g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/voronota-1.22.3149=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c -o mode_demo_blank.o `test -f 'src/modes/mode_demo_blank.cpp' || echo './'`src/modes/mode_demo_blank.cpp -g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/voronota-1.22.3149=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c -o mode_compare_files_as_sets.o `test -f 'src/modes/mode_compare_files_as_sets.cpp' || echo './'`src/modes/mode_compare_files_as_sets.cpp -g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/voronota-1.22.3149=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c -o mode_score_contacts_potential.o `test -f 'src/modes/mode_score_contacts_potential.cpp' || echo './'`src/modes/mode_score_contacts_potential.cpp src/voronota.cpp:58:22: warning: 'template class std::pointer_to_unary_function' is deprecated [-Wdeprecated-declarations] 58 | typedef std::pointer_to_unary_function FunctionPtr; | ^~~~~~~~~~~~~~~~~~~~~~~~~ @@ -506,13 +520,20 @@ /usr/include/c++/13/bits/stl_function.h:1105:11: note: declared here 1105 | class pointer_to_unary_function : public unary_function<_Arg, _Result> | ^~~~~~~~~~~~~~~~~~~~~~~~~ -g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/voronota-1.22.3149=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c -o mode_reprint_hbp.o `test -f 'src/modes/mode_reprint_hbp.cpp' || echo './'`src/modes/mode_reprint_hbp.cpp -g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/voronota-1.22.3149=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c -o mode_write_qa_scores_in_casp_format.o `test -f 'src/modes/mode_write_qa_scores_in_casp_format.cpp' || echo './'`src/modes/mode_write_qa_scores_in_casp_format.cpp -g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/voronota-1.22.3149=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c -o mode_get_balls_from_atoms_file.o `test -f 'src/modes/mode_get_balls_from_atoms_file.cpp' || echo './'`src/modes/mode_get_balls_from_atoms_file.cpp -In file included from /usr/include/c++/13/bits/stl_tree.h:63, - from /usr/include/c++/13/set:62, - from src/modes/../apollota/search_for_spherical_collisions.h:4, - from src/modes/mode_query_balls_clashes.cpp:1: +g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/voronota-1.22.3149=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c -o mode_vectorize_contact_environments.o `test -f 'src/modes/mode_vectorize_contact_environments.cpp' || echo './'`src/modes/mode_vectorize_contact_environments.cpp +g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/voronota-1.22.3149=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c -o mode_calculate_path_centralities.o `test -f 'src/modes/mode_calculate_path_centralities.cpp' || echo './'`src/modes/mode_calculate_path_centralities.cpp +g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/voronota-1.22.3149=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c -o mode_write_balls_to_atoms_file.o `test -f 'src/modes/mode_write_balls_to_atoms_file.cpp' || echo './'`src/modes/mode_write_balls_to_atoms_file.cpp +g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/voronota-1.22.3149=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c -o mode_draw_contacts.o `test -f 'src/modes/mode_draw_contacts.cpp' || echo './'`src/modes/mode_draw_contacts.cpp +g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/voronota-1.22.3149=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c -o mode_plot_contacts.o `test -f 'src/modes/mode_plot_contacts.cpp' || echo './'`src/modes/mode_plot_contacts.cpp +g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/voronota-1.22.3149=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c -o mode_expand_descriptors.o `test -f 'src/modes/mode_expand_descriptors.cpp' || echo './'`src/modes/mode_expand_descriptors.cpp +g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/voronota-1.22.3149=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c -o mode_query_contacts_depth_values.o `test -f 'src/modes/mode_query_contacts_depth_values.cpp' || echo './'`src/modes/mode_query_contacts_depth_values.cpp +In file included from /usr/include/c++/13/string:51, + from /usr/include/c++/13/bits/locale_classes.h:40, + from /usr/include/c++/13/bits/ios_base.h:41, + from /usr/include/c++/13/ios:44, + from /usr/include/c++/13/ostream:40, + from /usr/include/c++/13/iostream:41, + from src/modes/mode_calculate_vertices_in_parallel.cpp:1: In static member function 'static _Up* std::__copy_move<_IsMove, true, std::random_access_iterator_tag>::__copy_m(_Tp*, _Tp*, _Up*) [with _Tp = const long unsigned int; _Up = long unsigned int; bool _IsMove = false]', inlined from '_OI std::__copy_move_a2(_II, _II, _OI) [with bool _IsMove = false; _II = const long unsigned int*; _OI = long unsigned int*]' at /usr/include/c++/13/bits/stl_algobase.h:506:30, inlined from '_OI std::__copy_move_a1(_II, _II, _OI) [with bool _IsMove = false; _II = const long unsigned int*; _OI = long unsigned int*]' at /usr/include/c++/13/bits/stl_algobase.h:533:42, @@ -528,9 +549,9 @@ | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/x86_64-linux-gnu/c++/13/bits/c++allocator.h:33, from /usr/include/c++/13/bits/allocator.h:46, - from /usr/include/c++/13/bits/stl_tree.h:64: + from /usr/include/c++/13/string:43: In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = long unsigned int]', - inlined from 'static _Tp* std::allocator_traits >::allocate(allocator_type&, size_type) [with _Tp = long unsigned int]' at /usr/include/c++/13/bits/alloc_traits.h:482:28, + inlined from 'static _Tp* std::allocator_traits >::allocate(allocator_type&, size_type) [with _Tp = long unsigned int]' at /usr/include/c++/13/bits/alloc_traits.h:482:28, inlined from 'std::_Vector_base<_Tp, _Alloc>::pointer std::_Vector_base<_Tp, _Alloc>::_M_allocate(std::size_t) [with _Tp = long unsigned int; _Alloc = std::allocator]' at /usr/include/c++/13/bits/stl_vector.h:381:33, inlined from 'std::_Vector_base<_Tp, _Alloc>::pointer std::_Vector_base<_Tp, _Alloc>::_M_allocate(std::size_t) [with _Tp = long unsigned int; _Alloc = std::allocator]' at /usr/include/c++/13/bits/stl_vector.h:378:7, inlined from 'void std::_Vector_base<_Tp, _Alloc>::_M_create_storage(std::size_t) [with _Tp = long unsigned int; _Alloc = std::allocator]' at /usr/include/c++/13/bits/stl_vector.h:398:44, @@ -540,6 +561,10 @@ /usr/include/c++/13/bits/new_allocator.h:151:55: note: destination object of size 8 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ +In file included from /usr/include/c++/13/bits/stl_tree.h:63, + from /usr/include/c++/13/set:62, + from src/modes/../apollota/search_for_spherical_collisions.h:4, + from src/modes/mode_query_balls_clashes.cpp:1: In static member function 'static _Up* std::__copy_move<_IsMove, true, std::random_access_iterator_tag>::__copy_m(_Tp*, _Tp*, _Up*) [with _Tp = const long unsigned int; _Up = long unsigned int; bool _IsMove = false]', inlined from '_OI std::__copy_move_a2(_II, _II, _OI) [with bool _IsMove = false; _II = const long unsigned int*; _OI = long unsigned int*]' at /usr/include/c++/13/bits/stl_algobase.h:506:30, inlined from '_OI std::__copy_move_a1(_II, _II, _OI) [with bool _IsMove = false; _II = const long unsigned int*; _OI = long unsigned int*]' at /usr/include/c++/13/bits/stl_algobase.h:533:42, @@ -549,10 +574,13 @@ inlined from '_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = long unsigned int*]' at /usr/include/c++/13/bits/stl_uninitialized.h:185:15, inlined from '_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, allocator<_Tp>&) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = long unsigned int*; _Tp = long unsigned int]' at /usr/include/c++/13/bits/stl_uninitialized.h:373:37, inlined from 'std::vector<_Tp, _Alloc>::vector(const std::vector<_Tp, _Alloc>&) [with _Tp = long unsigned int; _Alloc = std::allocator]' at /usr/include/c++/13/bits/stl_vector.h:606:31, - inlined from 'static std::vector voronota::apollota::SplittingOfSpheres::order_for_median(const std::vector&, const std::vector&, unsigned int) [with PointType = voronota::apollota::BoundingSpheresHierarchy::Cluster]' at src/modes/../apollota/splitting_of_spheres.h:69:11: + inlined from 'static std::vector voronota::apollota::SplittingOfSpheres::order_for_median(const std::vector&, const std::vector&, unsigned int) [with PointType = voronota::apollota::SimpleSphere]' at src/modes/../apollota/splitting_of_spheres.h:69:11: /usr/include/c++/13/bits/stl_algobase.h:437:30: warning: 'void* __builtin_memmove(void*, const void*, long unsigned int)' writing between 9 and 9223372036854775807 bytes into a region of size 8 overflows the destination [-Wstringop-overflow=] 437 | __builtin_memmove(__result, __first, sizeof(_Tp) * _Num); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /usr/include/x86_64-linux-gnu/c++/13/bits/c++allocator.h:33, + from /usr/include/c++/13/bits/allocator.h:46, + from /usr/include/c++/13/bits/stl_tree.h:64: In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = long unsigned int]', inlined from 'static _Tp* std::allocator_traits >::allocate(allocator_type&, size_type) [with _Tp = long unsigned int]' at /usr/include/c++/13/bits/alloc_traits.h:482:28, inlined from 'std::_Vector_base<_Tp, _Alloc>::pointer std::_Vector_base<_Tp, _Alloc>::_M_allocate(std::size_t) [with _Tp = long unsigned int; _Alloc = std::allocator]' at /usr/include/c++/13/bits/stl_vector.h:381:33, @@ -560,17 +588,14 @@ inlined from 'void std::_Vector_base<_Tp, _Alloc>::_M_create_storage(std::size_t) [with _Tp = long unsigned int; _Alloc = std::allocator]' at /usr/include/c++/13/bits/stl_vector.h:398:44, inlined from 'std::_Vector_base<_Tp, _Alloc>::_Vector_base(std::size_t, const allocator_type&) [with _Tp = long unsigned int; _Alloc = std::allocator]' at /usr/include/c++/13/bits/stl_vector.h:335:26, inlined from 'std::vector<_Tp, _Alloc>::vector(const std::vector<_Tp, _Alloc>&) [with _Tp = long unsigned int; _Alloc = std::allocator]' at /usr/include/c++/13/bits/stl_vector.h:603:61, - inlined from 'static std::vector voronota::apollota::SplittingOfSpheres::order_for_median(const std::vector&, const std::vector&, unsigned int) [with PointType = voronota::apollota::BoundingSpheresHierarchy::Cluster]' at src/modes/../apollota/splitting_of_spheres.h:69:11: + inlined from 'static std::vector voronota::apollota::SplittingOfSpheres::order_for_median(const std::vector&, const std::vector&, unsigned int) [with PointType = voronota::apollota::SimpleSphere]' at src/modes/../apollota/splitting_of_spheres.h:69:11: /usr/include/c++/13/bits/new_allocator.h:151:55: note: destination object of size 8 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ -In file included from /usr/include/c++/13/string:51, - from /usr/include/c++/13/bits/locale_classes.h:40, - from /usr/include/c++/13/bits/ios_base.h:41, - from /usr/include/c++/13/ios:44, - from /usr/include/c++/13/ostream:40, - from /usr/include/c++/13/iostream:41, - from src/modes/mode_calculate_vertices_in_parallel.cpp:1: +g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/voronota-1.22.3149=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c -o mode_score_scores.o `test -f 'src/modes/mode_score_scores.cpp' || echo './'`src/modes/mode_score_scores.cpp +g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/voronota-1.22.3149=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c -o mode_score_contacts_potentials_stats.o `test -f 'src/modes/mode_score_contacts_potentials_stats.cpp' || echo './'`src/modes/mode_score_contacts_potentials_stats.cpp +g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/voronota-1.22.3149=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c -o mode_score_contacts_energy.o `test -f 'src/modes/mode_score_contacts_energy.cpp' || echo './'`src/modes/mode_score_contacts_energy.cpp +g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/voronota-1.22.3149=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c -o mode_query_balls_sequences_pairings_stats.o `test -f 'src/modes/mode_query_balls_sequences_pairings_stats.cpp' || echo './'`src/modes/mode_query_balls_sequences_pairings_stats.cpp In static member function 'static _Up* std::__copy_move<_IsMove, true, std::random_access_iterator_tag>::__copy_m(_Tp*, _Tp*, _Up*) [with _Tp = const long unsigned int; _Up = long unsigned int; bool _IsMove = false]', inlined from '_OI std::__copy_move_a2(_II, _II, _OI) [with bool _IsMove = false; _II = const long unsigned int*; _OI = long unsigned int*]' at /usr/include/c++/13/bits/stl_algobase.h:506:30, inlined from '_OI std::__copy_move_a1(_II, _II, _OI) [with bool _IsMove = false; _II = const long unsigned int*; _OI = long unsigned int*]' at /usr/include/c++/13/bits/stl_algobase.h:533:42, @@ -580,31 +605,22 @@ inlined from '_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = long unsigned int*]' at /usr/include/c++/13/bits/stl_uninitialized.h:185:15, inlined from '_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, allocator<_Tp>&) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = long unsigned int*; _Tp = long unsigned int]' at /usr/include/c++/13/bits/stl_uninitialized.h:373:37, inlined from 'std::vector<_Tp, _Alloc>::vector(const std::vector<_Tp, _Alloc>&) [with _Tp = long unsigned int; _Alloc = std::allocator]' at /usr/include/c++/13/bits/stl_vector.h:606:31, - inlined from 'static std::vector voronota::apollota::SplittingOfSpheres::order_for_median(const std::vector&, const std::vector&, unsigned int) [with PointType = voronota::apollota::SimpleSphere]' at src/modes/../apollota/splitting_of_spheres.h:69:11: + inlined from 'static std::vector voronota::apollota::SplittingOfSpheres::order_for_median(const std::vector&, const std::vector&, unsigned int) [with PointType = voronota::apollota::BoundingSpheresHierarchy::Cluster]' at src/modes/../apollota/splitting_of_spheres.h:69:11: /usr/include/c++/13/bits/stl_algobase.h:437:30: warning: 'void* __builtin_memmove(void*, const void*, long unsigned int)' writing between 9 and 9223372036854775807 bytes into a region of size 8 overflows the destination [-Wstringop-overflow=] 437 | __builtin_memmove(__result, __first, sizeof(_Tp) * _Num); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /usr/include/x86_64-linux-gnu/c++/13/bits/c++allocator.h:33, - from /usr/include/c++/13/bits/allocator.h:46, - from /usr/include/c++/13/string:43: In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = long unsigned int]', - inlined from 'static _Tp* std::allocator_traits >::allocate(allocator_type&, size_type) [with _Tp = long unsigned int]' at /usr/include/c++/13/bits/alloc_traits.h:482:28, + inlined from 'static _Tp* std::allocator_traits >::allocate(allocator_type&, size_type) [with _Tp = long unsigned int]' at /usr/include/c++/13/bits/alloc_traits.h:482:28, inlined from 'std::_Vector_base<_Tp, _Alloc>::pointer std::_Vector_base<_Tp, _Alloc>::_M_allocate(std::size_t) [with _Tp = long unsigned int; _Alloc = std::allocator]' at /usr/include/c++/13/bits/stl_vector.h:381:33, inlined from 'std::_Vector_base<_Tp, _Alloc>::pointer std::_Vector_base<_Tp, _Alloc>::_M_allocate(std::size_t) [with _Tp = long unsigned int; _Alloc = std::allocator]' at /usr/include/c++/13/bits/stl_vector.h:378:7, inlined from 'void std::_Vector_base<_Tp, _Alloc>::_M_create_storage(std::size_t) [with _Tp = long unsigned int; _Alloc = std::allocator]' at /usr/include/c++/13/bits/stl_vector.h:398:44, inlined from 'std::_Vector_base<_Tp, _Alloc>::_Vector_base(std::size_t, const allocator_type&) [with _Tp = long unsigned int; _Alloc = std::allocator]' at /usr/include/c++/13/bits/stl_vector.h:335:26, inlined from 'std::vector<_Tp, _Alloc>::vector(const std::vector<_Tp, _Alloc>&) [with _Tp = long unsigned int; _Alloc = std::allocator]' at /usr/include/c++/13/bits/stl_vector.h:603:61, - inlined from 'static std::vector voronota::apollota::SplittingOfSpheres::order_for_median(const std::vector&, const std::vector&, unsigned int) [with PointType = voronota::apollota::SimpleSphere]' at src/modes/../apollota/splitting_of_spheres.h:69:11: + inlined from 'static std::vector voronota::apollota::SplittingOfSpheres::order_for_median(const std::vector&, const std::vector&, unsigned int) [with PointType = voronota::apollota::BoundingSpheresHierarchy::Cluster]' at src/modes/../apollota/splitting_of_spheres.h:69:11: /usr/include/c++/13/bits/new_allocator.h:151:55: note: destination object of size 8 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ -In file included from /usr/include/c++/13/string:51, - from /usr/include/c++/13/bits/locale_classes.h:40, - from /usr/include/c++/13/bits/ios_base.h:41, - from /usr/include/c++/13/ios:44, - from /usr/include/c++/13/ostream:40, - from /usr/include/c++/13/iostream:41, - from src/modes/mode_calculate_vertices.cpp:1: +g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/voronota-1.22.3149=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c -o mode_vectorize_contacts.o `test -f 'src/modes/mode_vectorize_contacts.cpp' || echo './'`src/modes/mode_vectorize_contacts.cpp In static member function 'static _Up* std::__copy_move<_IsMove, true, std::random_access_iterator_tag>::__copy_m(_Tp*, _Tp*, _Up*) [with _Tp = const long unsigned int; _Up = long unsigned int; bool _IsMove = false]', inlined from '_OI std::__copy_move_a2(_II, _II, _OI) [with bool _IsMove = false; _II = const long unsigned int*; _OI = long unsigned int*]' at /usr/include/c++/13/bits/stl_algobase.h:506:30, inlined from '_OI std::__copy_move_a1(_II, _II, _OI) [with bool _IsMove = false; _II = const long unsigned int*; _OI = long unsigned int*]' at /usr/include/c++/13/bits/stl_algobase.h:533:42, @@ -614,13 +630,10 @@ inlined from '_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = long unsigned int*]' at /usr/include/c++/13/bits/stl_uninitialized.h:185:15, inlined from '_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, allocator<_Tp>&) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = long unsigned int*; _Tp = long unsigned int]' at /usr/include/c++/13/bits/stl_uninitialized.h:373:37, inlined from 'std::vector<_Tp, _Alloc>::vector(const std::vector<_Tp, _Alloc>&) [with _Tp = long unsigned int; _Alloc = std::allocator]' at /usr/include/c++/13/bits/stl_vector.h:606:31, - inlined from 'static std::vector voronota::apollota::SplittingOfSpheres::order_for_median(const std::vector&, const std::vector&, unsigned int) [with PointType = voronota::apollota::SimpleSphere]' at src/modes/../apollota/splitting_of_spheres.h:69:11: + inlined from 'static std::vector voronota::apollota::SplittingOfSpheres::order_for_median(const std::vector&, const std::vector&, unsigned int) [with PointType = voronota::apollota::BoundingSpheresHierarchy::Cluster]' at src/modes/../apollota/splitting_of_spheres.h:69:11: /usr/include/c++/13/bits/stl_algobase.h:437:30: warning: 'void* __builtin_memmove(void*, const void*, long unsigned int)' writing between 9 and 9223372036854775807 bytes into a region of size 8 overflows the destination [-Wstringop-overflow=] 437 | __builtin_memmove(__result, __first, sizeof(_Tp) * _Num); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /usr/include/x86_64-linux-gnu/c++/13/bits/c++allocator.h:33, - from /usr/include/c++/13/bits/allocator.h:46, - from /usr/include/c++/13/string:43: In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = long unsigned int]', inlined from 'static _Tp* std::allocator_traits >::allocate(allocator_type&, size_type) [with _Tp = long unsigned int]' at /usr/include/c++/13/bits/alloc_traits.h:482:28, inlined from 'std::_Vector_base<_Tp, _Alloc>::pointer std::_Vector_base<_Tp, _Alloc>::_M_allocate(std::size_t) [with _Tp = long unsigned int; _Alloc = std::allocator]' at /usr/include/c++/13/bits/stl_vector.h:381:33, @@ -628,10 +641,17 @@ inlined from 'void std::_Vector_base<_Tp, _Alloc>::_M_create_storage(std::size_t) [with _Tp = long unsigned int; _Alloc = std::allocator]' at /usr/include/c++/13/bits/stl_vector.h:398:44, inlined from 'std::_Vector_base<_Tp, _Alloc>::_Vector_base(std::size_t, const allocator_type&) [with _Tp = long unsigned int; _Alloc = std::allocator]' at /usr/include/c++/13/bits/stl_vector.h:335:26, inlined from 'std::vector<_Tp, _Alloc>::vector(const std::vector<_Tp, _Alloc>&) [with _Tp = long unsigned int; _Alloc = std::allocator]' at /usr/include/c++/13/bits/stl_vector.h:603:61, - inlined from 'static std::vector voronota::apollota::SplittingOfSpheres::order_for_median(const std::vector&, const std::vector&, unsigned int) [with PointType = voronota::apollota::SimpleSphere]' at src/modes/../apollota/splitting_of_spheres.h:69:11: + inlined from 'static std::vector voronota::apollota::SplittingOfSpheres::order_for_median(const std::vector&, const std::vector&, unsigned int) [with PointType = voronota::apollota::BoundingSpheresHierarchy::Cluster]' at src/modes/../apollota/splitting_of_spheres.h:69:11: /usr/include/c++/13/bits/new_allocator.h:151:55: note: destination object of size 8 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ +In file included from /usr/include/c++/13/string:51, + from /usr/include/c++/13/bits/locale_classes.h:40, + from /usr/include/c++/13/bits/ios_base.h:41, + from /usr/include/c++/13/ios:44, + from /usr/include/c++/13/ostream:40, + from /usr/include/c++/13/iostream:41, + from src/modes/mode_calculate_vertices.cpp:1: In static member function 'static _Up* std::__copy_move<_IsMove, true, std::random_access_iterator_tag>::__copy_m(_Tp*, _Tp*, _Up*) [with _Tp = const long unsigned int; _Up = long unsigned int; bool _IsMove = false]', inlined from '_OI std::__copy_move_a2(_II, _II, _OI) [with bool _IsMove = false; _II = const long unsigned int*; _OI = long unsigned int*]' at /usr/include/c++/13/bits/stl_algobase.h:506:30, inlined from '_OI std::__copy_move_a1(_II, _II, _OI) [with bool _IsMove = false; _II = const long unsigned int*; _OI = long unsigned int*]' at /usr/include/c++/13/bits/stl_algobase.h:533:42, @@ -641,10 +661,13 @@ inlined from '_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = long unsigned int*]' at /usr/include/c++/13/bits/stl_uninitialized.h:185:15, inlined from '_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, allocator<_Tp>&) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = long unsigned int*; _Tp = long unsigned int]' at /usr/include/c++/13/bits/stl_uninitialized.h:373:37, inlined from 'std::vector<_Tp, _Alloc>::vector(const std::vector<_Tp, _Alloc>&) [with _Tp = long unsigned int; _Alloc = std::allocator]' at /usr/include/c++/13/bits/stl_vector.h:606:31, - inlined from 'static std::vector voronota::apollota::SplittingOfSpheres::order_for_median(const std::vector&, const std::vector&, unsigned int) [with PointType = voronota::apollota::BoundingSpheresHierarchy::Cluster]' at src/modes/../apollota/splitting_of_spheres.h:69:11: + inlined from 'static std::vector voronota::apollota::SplittingOfSpheres::order_for_median(const std::vector&, const std::vector&, unsigned int) [with PointType = voronota::apollota::SimpleSphere]' at src/modes/../apollota/splitting_of_spheres.h:69:11: /usr/include/c++/13/bits/stl_algobase.h:437:30: warning: 'void* __builtin_memmove(void*, const void*, long unsigned int)' writing between 9 and 9223372036854775807 bytes into a region of size 8 overflows the destination [-Wstringop-overflow=] 437 | __builtin_memmove(__result, __first, sizeof(_Tp) * _Num); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /usr/include/x86_64-linux-gnu/c++/13/bits/c++allocator.h:33, + from /usr/include/c++/13/bits/allocator.h:46, + from /usr/include/c++/13/string:43: In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = long unsigned int]', inlined from 'static _Tp* std::allocator_traits >::allocate(allocator_type&, size_type) [with _Tp = long unsigned int]' at /usr/include/c++/13/bits/alloc_traits.h:482:28, inlined from 'std::_Vector_base<_Tp, _Alloc>::pointer std::_Vector_base<_Tp, _Alloc>::_M_allocate(std::size_t) [with _Tp = long unsigned int; _Alloc = std::allocator]' at /usr/include/c++/13/bits/stl_vector.h:381:33, @@ -652,10 +675,12 @@ inlined from 'void std::_Vector_base<_Tp, _Alloc>::_M_create_storage(std::size_t) [with _Tp = long unsigned int; _Alloc = std::allocator]' at /usr/include/c++/13/bits/stl_vector.h:398:44, inlined from 'std::_Vector_base<_Tp, _Alloc>::_Vector_base(std::size_t, const allocator_type&) [with _Tp = long unsigned int; _Alloc = std::allocator]' at /usr/include/c++/13/bits/stl_vector.h:335:26, inlined from 'std::vector<_Tp, _Alloc>::vector(const std::vector<_Tp, _Alloc>&) [with _Tp = long unsigned int; _Alloc = std::allocator]' at /usr/include/c++/13/bits/stl_vector.h:603:61, - inlined from 'static std::vector voronota::apollota::SplittingOfSpheres::order_for_median(const std::vector&, const std::vector&, unsigned int) [with PointType = voronota::apollota::BoundingSpheresHierarchy::Cluster]' at src/modes/../apollota/splitting_of_spheres.h:69:11: + inlined from 'static std::vector voronota::apollota::SplittingOfSpheres::order_for_median(const std::vector&, const std::vector&, unsigned int) [with PointType = voronota::apollota::SimpleSphere]' at src/modes/../apollota/splitting_of_spheres.h:69:11: /usr/include/c++/13/bits/new_allocator.h:151:55: note: destination object of size 8 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ +g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/voronota-1.22.3149=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c -o mode_draw_balls.o `test -f 'src/modes/mode_draw_balls.cpp' || echo './'`src/modes/mode_draw_balls.cpp +g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/voronota-1.22.3149=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c -o mode_vectorize_points.o `test -f 'src/modes/mode_vectorize_points.cpp' || echo './'`src/modes/mode_vectorize_points.cpp In static member function 'static _Up* std::__copy_move<_IsMove, true, std::random_access_iterator_tag>::__copy_m(_Tp*, _Tp*, _Up*) [with _Tp = const long unsigned int; _Up = long unsigned int; bool _IsMove = false]', inlined from '_OI std::__copy_move_a2(_II, _II, _OI) [with bool _IsMove = false; _II = const long unsigned int*; _OI = long unsigned int*]' at /usr/include/c++/13/bits/stl_algobase.h:506:30, inlined from '_OI std::__copy_move_a1(_II, _II, _OI) [with bool _IsMove = false; _II = const long unsigned int*; _OI = long unsigned int*]' at /usr/include/c++/13/bits/stl_algobase.h:533:42, @@ -680,10 +705,15 @@ /usr/include/c++/13/bits/new_allocator.h:151:55: note: destination object of size 8 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ -In file included from /usr/include/c++/13/bits/stl_tree.h:63, - from /usr/include/c++/13/set:62, - from src/modes/../apollota/search_for_spherical_collisions.h:4, - from src/modes/mode_draw_balls.cpp:1: +g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/voronota-1.22.3149=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c -o mode_rotational_optimization_demo.o `test -f 'src/modes/mode_rotational_optimization_demo.cpp' || echo './'`src/modes/mode_rotational_optimization_demo.cpp +g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/voronota-1.22.3149=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c -o mode_run_script.o `test -f 'src/modes/mode_run_script.cpp' || echo './'`src/modes/mode_run_script.cpp +In file included from /usr/include/c++/13/string:51, + from /usr/include/c++/13/bits/locale_classes.h:40, + from /usr/include/c++/13/bits/ios_base.h:41, + from /usr/include/c++/13/ios:44, + from /usr/include/c++/13/ostream:40, + from /usr/include/c++/13/iostream:41, + from src/modes/mode_calculate_mock_solvent.cpp:1: In static member function 'static _Up* std::__copy_move<_IsMove, true, std::random_access_iterator_tag>::__copy_m(_Tp*, _Tp*, _Up*) [with _Tp = const long unsigned int; _Up = long unsigned int; bool _IsMove = false]', inlined from '_OI std::__copy_move_a2(_II, _II, _OI) [with bool _IsMove = false; _II = const long unsigned int*; _OI = long unsigned int*]' at /usr/include/c++/13/bits/stl_algobase.h:506:30, inlined from '_OI std::__copy_move_a1(_II, _II, _OI) [with bool _IsMove = false; _II = const long unsigned int*; _OI = long unsigned int*]' at /usr/include/c++/13/bits/stl_algobase.h:533:42, @@ -699,9 +729,9 @@ | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/x86_64-linux-gnu/c++/13/bits/c++allocator.h:33, from /usr/include/c++/13/bits/allocator.h:46, - from /usr/include/c++/13/bits/stl_tree.h:64: + from /usr/include/c++/13/string:43: In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = long unsigned int]', - inlined from 'static _Tp* std::allocator_traits >::allocate(allocator_type&, size_type) [with _Tp = long unsigned int]' at /usr/include/c++/13/bits/alloc_traits.h:482:28, + inlined from 'static _Tp* std::allocator_traits >::allocate(allocator_type&, size_type) [with _Tp = long unsigned int]' at /usr/include/c++/13/bits/alloc_traits.h:482:28, inlined from 'std::_Vector_base<_Tp, _Alloc>::pointer std::_Vector_base<_Tp, _Alloc>::_M_allocate(std::size_t) [with _Tp = long unsigned int; _Alloc = std::allocator]' at /usr/include/c++/13/bits/stl_vector.h:381:33, inlined from 'std::_Vector_base<_Tp, _Alloc>::pointer std::_Vector_base<_Tp, _Alloc>::_M_allocate(std::size_t) [with _Tp = long unsigned int; _Alloc = std::allocator]' at /usr/include/c++/13/bits/stl_vector.h:378:7, inlined from 'void std::_Vector_base<_Tp, _Alloc>::_M_create_storage(std::size_t) [with _Tp = long unsigned int; _Alloc = std::allocator]' at /usr/include/c++/13/bits/stl_vector.h:398:44, @@ -725,7 +755,7 @@ 437 | __builtin_memmove(__result, __first, sizeof(_Tp) * _Num); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = long unsigned int]', - inlined from 'static _Tp* std::allocator_traits >::allocate(allocator_type&, size_type) [with _Tp = long unsigned int]' at /usr/include/c++/13/bits/alloc_traits.h:482:28, + inlined from 'static _Tp* std::allocator_traits >::allocate(allocator_type&, size_type) [with _Tp = long unsigned int]' at /usr/include/c++/13/bits/alloc_traits.h:482:28, inlined from 'std::_Vector_base<_Tp, _Alloc>::pointer std::_Vector_base<_Tp, _Alloc>::_M_allocate(std::size_t) [with _Tp = long unsigned int; _Alloc = std::allocator]' at /usr/include/c++/13/bits/stl_vector.h:381:33, inlined from 'std::_Vector_base<_Tp, _Alloc>::pointer std::_Vector_base<_Tp, _Alloc>::_M_allocate(std::size_t) [with _Tp = long unsigned int; _Alloc = std::allocator]' at /usr/include/c++/13/bits/stl_vector.h:378:7, inlined from 'void std::_Vector_base<_Tp, _Alloc>::_M_create_storage(std::size_t) [with _Tp = long unsigned int; _Alloc = std::allocator]' at /usr/include/c++/13/bits/stl_vector.h:398:44, @@ -735,13 +765,14 @@ /usr/include/c++/13/bits/new_allocator.h:151:55: note: destination object of size 8 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ -In file included from /usr/include/c++/13/string:51, - from /usr/include/c++/13/bits/locale_classes.h:40, - from /usr/include/c++/13/bits/ios_base.h:41, - from /usr/include/c++/13/ios:44, - from /usr/include/c++/13/ostream:40, - from /usr/include/c++/13/iostream:41, - from src/modes/mode_calculate_mock_solvent.cpp:1: +g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/voronota-1.22.3149=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c -o mode_place_membrane.o `test -f 'src/modes/mode_place_membrane.cpp' || echo './'`src/modes/mode_place_membrane.cpp +g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/voronota-1.22.3149=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c -o mode_score_contacts_energy_stats.o `test -f 'src/modes/mode_score_contacts_energy_stats.cpp' || echo './'`src/modes/mode_score_contacts_energy_stats.cpp +g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/voronota-1.22.3149=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c -o mode_query_contacts.o `test -f 'src/modes/mode_query_contacts.cpp' || echo './'`src/modes/mode_query_contacts.cpp +g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/voronota-1.22.3149=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c -o mode_demo_blank.o `test -f 'src/modes/mode_demo_blank.cpp' || echo './'`src/modes/mode_demo_blank.cpp +g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/voronota-1.22.3149=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c -o mode_compare_files_as_sets.o `test -f 'src/modes/mode_compare_files_as_sets.cpp' || echo './'`src/modes/mode_compare_files_as_sets.cpp +In file included from /usr/include/c++/13/vector:62, + from src/modes/../apollota/spheres_boundary_construction.h:4, + from src/modes/mode_demo_ses.cpp:1: In static member function 'static _Up* std::__copy_move<_IsMove, true, std::random_access_iterator_tag>::__copy_m(_Tp*, _Tp*, _Up*) [with _Tp = const long unsigned int; _Up = long unsigned int; bool _IsMove = false]', inlined from '_OI std::__copy_move_a2(_II, _II, _OI) [with bool _IsMove = false; _II = const long unsigned int*; _OI = long unsigned int*]' at /usr/include/c++/13/bits/stl_algobase.h:506:30, inlined from '_OI std::__copy_move_a1(_II, _II, _OI) [with bool _IsMove = false; _II = const long unsigned int*; _OI = long unsigned int*]' at /usr/include/c++/13/bits/stl_algobase.h:533:42, @@ -757,9 +788,9 @@ | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/x86_64-linux-gnu/c++/13/bits/c++allocator.h:33, from /usr/include/c++/13/bits/allocator.h:46, - from /usr/include/c++/13/string:43: + from /usr/include/c++/13/vector:63: In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = long unsigned int]', - inlined from 'static _Tp* std::allocator_traits >::allocate(allocator_type&, size_type) [with _Tp = long unsigned int]' at /usr/include/c++/13/bits/alloc_traits.h:482:28, + inlined from 'static _Tp* std::allocator_traits >::allocate(allocator_type&, size_type) [with _Tp = long unsigned int]' at /usr/include/c++/13/bits/alloc_traits.h:482:28, inlined from 'std::_Vector_base<_Tp, _Alloc>::pointer std::_Vector_base<_Tp, _Alloc>::_M_allocate(std::size_t) [with _Tp = long unsigned int; _Alloc = std::allocator]' at /usr/include/c++/13/bits/stl_vector.h:381:33, inlined from 'std::_Vector_base<_Tp, _Alloc>::pointer std::_Vector_base<_Tp, _Alloc>::_M_allocate(std::size_t) [with _Tp = long unsigned int; _Alloc = std::allocator]' at /usr/include/c++/13/bits/stl_vector.h:378:7, inlined from 'void std::_Vector_base<_Tp, _Alloc>::_M_create_storage(std::size_t) [with _Tp = long unsigned int; _Alloc = std::allocator]' at /usr/include/c++/13/bits/stl_vector.h:398:44, @@ -769,6 +800,7 @@ /usr/include/c++/13/bits/new_allocator.h:151:55: note: destination object of size 8 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ +g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/voronota-1.22.3149=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c -o mode_score_contacts_potential.o `test -f 'src/modes/mode_score_contacts_potential.cpp' || echo './'`src/modes/mode_score_contacts_potential.cpp In static member function 'static _Up* std::__copy_move<_IsMove, true, std::random_access_iterator_tag>::__copy_m(_Tp*, _Tp*, _Up*) [with _Tp = const long unsigned int; _Up = long unsigned int; bool _IsMove = false]', inlined from '_OI std::__copy_move_a2(_II, _II, _OI) [with bool _IsMove = false; _II = const long unsigned int*; _OI = long unsigned int*]' at /usr/include/c++/13/bits/stl_algobase.h:506:30, inlined from '_OI std::__copy_move_a1(_II, _II, _OI) [with bool _IsMove = false; _II = const long unsigned int*; _OI = long unsigned int*]' at /usr/include/c++/13/bits/stl_algobase.h:533:42, @@ -783,7 +815,7 @@ 437 | __builtin_memmove(__result, __first, sizeof(_Tp) * _Num); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = long unsigned int]', - inlined from 'static _Tp* std::allocator_traits >::allocate(allocator_type&, size_type) [with _Tp = long unsigned int]' at /usr/include/c++/13/bits/alloc_traits.h:482:28, + inlined from 'static _Tp* std::allocator_traits >::allocate(allocator_type&, size_type) [with _Tp = long unsigned int]' at /usr/include/c++/13/bits/alloc_traits.h:482:28, inlined from 'std::_Vector_base<_Tp, _Alloc>::pointer std::_Vector_base<_Tp, _Alloc>::_M_allocate(std::size_t) [with _Tp = long unsigned int; _Alloc = std::allocator]' at /usr/include/c++/13/bits/stl_vector.h:381:33, inlined from 'std::_Vector_base<_Tp, _Alloc>::pointer std::_Vector_base<_Tp, _Alloc>::_M_allocate(std::size_t) [with _Tp = long unsigned int; _Alloc = std::allocator]' at /usr/include/c++/13/bits/stl_vector.h:378:7, inlined from 'void std::_Vector_base<_Tp, _Alloc>::_M_create_storage(std::size_t) [with _Tp = long unsigned int; _Alloc = std::allocator]' at /usr/include/c++/13/bits/stl_vector.h:398:44, @@ -793,9 +825,16 @@ /usr/include/c++/13/bits/new_allocator.h:151:55: note: destination object of size 8 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ -In file included from /usr/include/c++/13/vector:62, - from src/modes/../apollota/spheres_boundary_construction.h:4, - from src/modes/mode_demo_ses.cpp:1: +g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/voronota-1.22.3149=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c -o mode_reprint_hbp.o `test -f 'src/modes/mode_reprint_hbp.cpp' || echo './'`src/modes/mode_reprint_hbp.cpp +g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/voronota-1.22.3149=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c -o mode_write_qa_scores_in_casp_format.o `test -f 'src/modes/mode_write_qa_scores_in_casp_format.cpp' || echo './'`src/modes/mode_write_qa_scores_in_casp_format.cpp +g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/voronota-1.22.3149=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c -o mode_get_balls_from_atoms_file.o `test -f 'src/modes/mode_get_balls_from_atoms_file.cpp' || echo './'`src/modes/mode_get_balls_from_atoms_file.cpp +In file included from /usr/include/c++/13/string:51, + from /usr/include/c++/13/bits/locale_classes.h:40, + from /usr/include/c++/13/bits/ios_base.h:41, + from /usr/include/c++/13/ios:44, + from /usr/include/c++/13/ostream:40, + from /usr/include/c++/13/iostream:41, + from src/modes/mode_calculate_contacts.cpp:1: In static member function 'static _Up* std::__copy_move<_IsMove, true, std::random_access_iterator_tag>::__copy_m(_Tp*, _Tp*, _Up*) [with _Tp = const long unsigned int; _Up = long unsigned int; bool _IsMove = false]', inlined from '_OI std::__copy_move_a2(_II, _II, _OI) [with bool _IsMove = false; _II = const long unsigned int*; _OI = long unsigned int*]' at /usr/include/c++/13/bits/stl_algobase.h:506:30, inlined from '_OI std::__copy_move_a1(_II, _II, _OI) [with bool _IsMove = false; _II = const long unsigned int*; _OI = long unsigned int*]' at /usr/include/c++/13/bits/stl_algobase.h:533:42, @@ -811,9 +850,9 @@ | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/x86_64-linux-gnu/c++/13/bits/c++allocator.h:33, from /usr/include/c++/13/bits/allocator.h:46, - from /usr/include/c++/13/vector:63: + from /usr/include/c++/13/string:43: In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = long unsigned int]', - inlined from 'static _Tp* std::allocator_traits >::allocate(allocator_type&, size_type) [with _Tp = long unsigned int]' at /usr/include/c++/13/bits/alloc_traits.h:482:28, + inlined from 'static _Tp* std::allocator_traits >::allocate(allocator_type&, size_type) [with _Tp = long unsigned int]' at /usr/include/c++/13/bits/alloc_traits.h:482:28, inlined from 'std::_Vector_base<_Tp, _Alloc>::pointer std::_Vector_base<_Tp, _Alloc>::_M_allocate(std::size_t) [with _Tp = long unsigned int; _Alloc = std::allocator]' at /usr/include/c++/13/bits/stl_vector.h:381:33, inlined from 'std::_Vector_base<_Tp, _Alloc>::pointer std::_Vector_base<_Tp, _Alloc>::_M_allocate(std::size_t) [with _Tp = long unsigned int; _Alloc = std::allocator]' at /usr/include/c++/13/bits/stl_vector.h:378:7, inlined from 'void std::_Vector_base<_Tp, _Alloc>::_M_create_storage(std::size_t) [with _Tp = long unsigned int; _Alloc = std::allocator]' at /usr/include/c++/13/bits/stl_vector.h:398:44, @@ -837,7 +876,7 @@ 437 | __builtin_memmove(__result, __first, sizeof(_Tp) * _Num); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = long unsigned int]', - inlined from 'static _Tp* std::allocator_traits >::allocate(allocator_type&, size_type) [with _Tp = long unsigned int]' at /usr/include/c++/13/bits/alloc_traits.h:482:28, + inlined from 'static _Tp* std::allocator_traits >::allocate(allocator_type&, size_type) [with _Tp = long unsigned int]' at /usr/include/c++/13/bits/alloc_traits.h:482:28, inlined from 'std::_Vector_base<_Tp, _Alloc>::pointer std::_Vector_base<_Tp, _Alloc>::_M_allocate(std::size_t) [with _Tp = long unsigned int; _Alloc = std::allocator]' at /usr/include/c++/13/bits/stl_vector.h:381:33, inlined from 'std::_Vector_base<_Tp, _Alloc>::pointer std::_Vector_base<_Tp, _Alloc>::_M_allocate(std::size_t) [with _Tp = long unsigned int; _Alloc = std::allocator]' at /usr/include/c++/13/bits/stl_vector.h:378:7, inlined from 'void std::_Vector_base<_Tp, _Alloc>::_M_create_storage(std::size_t) [with _Tp = long unsigned int; _Alloc = std::allocator]' at /usr/include/c++/13/bits/stl_vector.h:398:44, @@ -847,13 +886,10 @@ /usr/include/c++/13/bits/new_allocator.h:151:55: note: destination object of size 8 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ -In file included from /usr/include/c++/13/string:51, - from /usr/include/c++/13/bits/locale_classes.h:40, - from /usr/include/c++/13/bits/ios_base.h:41, - from /usr/include/c++/13/ios:44, - from /usr/include/c++/13/ostream:40, - from /usr/include/c++/13/iostream:41, - from src/modes/mode_calculate_contacts.cpp:1: +In file included from /usr/include/c++/13/bits/stl_tree.h:63, + from /usr/include/c++/13/set:62, + from src/modes/../apollota/search_for_spherical_collisions.h:4, + from src/modes/mode_draw_balls.cpp:1: In static member function 'static _Up* std::__copy_move<_IsMove, true, std::random_access_iterator_tag>::__copy_m(_Tp*, _Tp*, _Up*) [with _Tp = const long unsigned int; _Up = long unsigned int; bool _IsMove = false]', inlined from '_OI std::__copy_move_a2(_II, _II, _OI) [with bool _IsMove = false; _II = const long unsigned int*; _OI = long unsigned int*]' at /usr/include/c++/13/bits/stl_algobase.h:506:30, inlined from '_OI std::__copy_move_a1(_II, _II, _OI) [with bool _IsMove = false; _II = const long unsigned int*; _OI = long unsigned int*]' at /usr/include/c++/13/bits/stl_algobase.h:533:42, @@ -869,9 +905,9 @@ | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/x86_64-linux-gnu/c++/13/bits/c++allocator.h:33, from /usr/include/c++/13/bits/allocator.h:46, - from /usr/include/c++/13/string:43: + from /usr/include/c++/13/bits/stl_tree.h:64: In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = long unsigned int]', - inlined from 'static _Tp* std::allocator_traits >::allocate(allocator_type&, size_type) [with _Tp = long unsigned int]' at /usr/include/c++/13/bits/alloc_traits.h:482:28, + inlined from 'static _Tp* std::allocator_traits >::allocate(allocator_type&, size_type) [with _Tp = long unsigned int]' at /usr/include/c++/13/bits/alloc_traits.h:482:28, inlined from 'std::_Vector_base<_Tp, _Alloc>::pointer std::_Vector_base<_Tp, _Alloc>::_M_allocate(std::size_t) [with _Tp = long unsigned int; _Alloc = std::allocator]' at /usr/include/c++/13/bits/stl_vector.h:381:33, inlined from 'std::_Vector_base<_Tp, _Alloc>::pointer std::_Vector_base<_Tp, _Alloc>::_M_allocate(std::size_t) [with _Tp = long unsigned int; _Alloc = std::allocator]' at /usr/include/c++/13/bits/stl_vector.h:378:7, inlined from 'void std::_Vector_base<_Tp, _Alloc>::_M_create_storage(std::size_t) [with _Tp = long unsigned int; _Alloc = std::allocator]' at /usr/include/c++/13/bits/stl_vector.h:398:44, @@ -895,7 +931,7 @@ 437 | __builtin_memmove(__result, __first, sizeof(_Tp) * _Num); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = long unsigned int]', - inlined from 'static _Tp* std::allocator_traits >::allocate(allocator_type&, size_type) [with _Tp = long unsigned int]' at /usr/include/c++/13/bits/alloc_traits.h:482:28, + inlined from 'static _Tp* std::allocator_traits >::allocate(allocator_type&, size_type) [with _Tp = long unsigned int]' at /usr/include/c++/13/bits/alloc_traits.h:482:28, inlined from 'std::_Vector_base<_Tp, _Alloc>::pointer std::_Vector_base<_Tp, _Alloc>::_M_allocate(std::size_t) [with _Tp = long unsigned int; _Alloc = std::allocator]' at /usr/include/c++/13/bits/stl_vector.h:381:33, inlined from 'std::_Vector_base<_Tp, _Alloc>::pointer std::_Vector_base<_Tp, _Alloc>::_M_allocate(std::size_t) [with _Tp = long unsigned int; _Alloc = std::allocator]' at /usr/include/c++/13/bits/stl_vector.h:378:7, inlined from 'void std::_Vector_base<_Tp, _Alloc>::_M_create_storage(std::size_t) [with _Tp = long unsigned int; _Alloc = std::allocator]' at /usr/include/c++/13/bits/stl_vector.h:398:44, @@ -911,15 +947,15 @@ create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install --destdir=debian/voronota/ - make -j42 install DESTDIR=/build/reproducible-path/voronota-1.22.3149/debian/voronota AM_UPDATE_INFO_DIR=no + make -j20 install DESTDIR=/build/reproducible-path/voronota-1.22.3149/debian/voronota AM_UPDATE_INFO_DIR=no make[1]: Entering directory '/build/reproducible-path/voronota-1.22.3149' make[2]: Entering directory '/build/reproducible-path/voronota-1.22.3149' /usr/bin/mkdir -p '/build/reproducible-path/voronota-1.22.3149/debian/voronota/usr/bin' /usr/bin/mkdir -p '/build/reproducible-path/voronota-1.22.3149/debian/voronota/usr/bin' /usr/bin/mkdir -p '/build/reproducible-path/voronota-1.22.3149/debian/voronota/usr/share/man/man1' - /usr/bin/install -c voronota '/build/reproducible-path/voronota-1.22.3149/debian/voronota/usr/bin' /usr/bin/install -c voronota-resources voronota-voromqa voronota-contacts voronota-cadscore voronota-volumes voronota-pocket voronota-membrane '/build/reproducible-path/voronota-1.22.3149/debian/voronota/usr/bin' /usr/bin/install -c -m 644 'voronota.man' '/build/reproducible-path/voronota-1.22.3149/debian/voronota/usr/share/man/man1/voronota.1' + /usr/bin/install -c voronota '/build/reproducible-path/voronota-1.22.3149/debian/voronota/usr/bin' make[2]: Leaving directory '/build/reproducible-path/voronota-1.22.3149' make[1]: Leaving directory '/build/reproducible-path/voronota-1.22.3149' dh_installdocs @@ -946,8 +982,8 @@ dh_gencontrol dh_md5sums dh_builddeb -dpkg-deb: building package 'voronota-dbgsym' in '../voronota-dbgsym_1.22.3149-2_amd64.deb'. dpkg-deb: building package 'voronota' in '../voronota_1.22.3149-2_amd64.deb'. +dpkg-deb: building package 'voronota-dbgsym' in '../voronota-dbgsym_1.22.3149-2_amd64.deb'. dpkg-genbuildinfo --build=binary -O../voronota_1.22.3149-2_amd64.buildinfo dpkg-genchanges --build=binary -O../voronota_1.22.3149-2_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) @@ -955,12 +991,14 @@ 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/1600373/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/1600373/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/2355929 and its subdirectories -I: Current time: Sun Jun 22 20:02:22 -12 2025 -I: pbuilder-time-stamp: 1750665742 +I: removing directory /srv/workspace/pbuilder/1600373 and its subdirectories +I: Current time: Tue May 21 15:47:25 +14 2024 +I: pbuilder-time-stamp: 1716256045