Running as unit: rb-build-arm64_4-102947.service; invocation ID: c55efa485be44822bd55af05515e5fa3 ==================================================================================== Thu Oct 30 22:44:21 UTC 2025 - running /srv/jenkins/bin/reproducible_build.sh (for job reproducible_builder_arm64_4) on jenkins, called using "codethink03-arm64 codethink04-arm64" as arguments. Thu Oct 30 22:44:21 UTC 2025 - actually running "reproducible_build.sh" (md5sum cc591790ab2c8e13f5e554202b95c89c) as "/tmp/jenkins-script-WVPUs9yf" $ git clone https://salsa.debian.org/qa/jenkins.debian.net.git ; more CONTRIBUTING Thu Oct 30 22:44:21 UTC 2025 - checking /var/lib/jenkins/offline_nodes if codethink03-arm64.debian.net is marked as down. Thu Oct 30 22:44:21 UTC 2025 - checking via ssh if codethink03-arm64.debian.net is up. removed '/tmp/read-only-fs-test-xazBUl' Thu Oct 30 22:44:21 UTC 2025 - checking /var/lib/jenkins/offline_nodes if codethink04-arm64.debian.net is marked as down. Thu Oct 30 22:44:21 UTC 2025 - checking via ssh if codethink04-arm64.debian.net is up. removed '/tmp/read-only-fs-test-Jn9I69' ok, let's check if vcftools is building anywhere yet… ok, vcftools is not building anywhere… UPDATE 1 ============================================================================= Initialising reproducibly build of vcftools in forky on arm64 on jenkins now. 1st build will be done on codethink03-arm64.debian.net. 2nd build will be done on codethink04-arm64.debian.net. ============================================================================= Thu Oct 30 22:44:35 UTC 2025 I: starting to build vcftools/forky/arm64 on jenkins on '2025-10-30 22:44' Thu Oct 30 22:44:35 UTC 2025 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/arm64_4/102947/console.log 1761864275 arm64 forky vcftools Thu Oct 30 22:44:35 UTC 2025 I: Downloading source for forky/vcftools=0.1.17-1 --2025-10-30 22:44:35-- http://deb.debian.org/debian/pool/main/v/vcftools/vcftools_0.1.17-1.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2043 (2.0K) [text/prs.lines.tag] Saving to: ‘vcftools_0.1.17-1.dsc’ 0K . 100% 226M=0s 2025-10-30 22:44:35 (226 MB/s) - ‘vcftools_0.1.17-1.dsc’ saved [2043/2043] --2025-10-30 22:44:35-- http://deb.debian.org/debian/pool/main/v/vcftools/vcftools_0.1.17-1.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2043 (2.0K) [text/prs.lines.tag] Saving to: ‘vcftools_0.1.17-1.dsc’ 0K . 100% 226M=0s 2025-10-30 22:44:35 (226 MB/s) - ‘vcftools_0.1.17-1.dsc’ saved [2043/2043] Thu Oct 30 22:44:35 UTC 2025 I: vcftools_0.1.17-1.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: vcftools Binary: vcftools Architecture: any Version: 0.1.17-1 Maintainer: Debian Med Packaging Team Uploaders: Thorsten Alteholz , Andreas Tille Homepage: https://vcftools.github.io/ Standards-Version: 4.7.2 Vcs-Browser: https://salsa.debian.org/med-team/vcftools Vcs-Git: https://salsa.debian.org/med-team/vcftools.git Testsuite: autopkgtest Testsuite-Triggers: libtest-most-perl, tabix Build-Depends: debhelper-compat (= 13), pkgconf, zlib1g-dev Package-List: vcftools deb science optional arch=any Checksums-Sha1: 72059d447fd02bb6f6f475e096097774deebbb88 247685 vcftools_0.1.17.orig.tar.gz 4bc6a321027451c34ccc24b234bd0d8f240aa76e 13976 vcftools_0.1.17-1.debian.tar.xz Checksums-Sha256: 00b54fc7349179c2efbdab0e4dcb65a69e7b0ab0d0d29b59cc823140d0b40bff 247685 vcftools_0.1.17.orig.tar.gz fee2757af403c952c89a607bf703f5bf63362cf9e6d941447c8acfbd624d6195 13976 vcftools_0.1.17-1.debian.tar.xz Files: 1585c9f9f25b47dca70a0e611a249cb6 247685 vcftools_0.1.17.orig.tar.gz 938ee270ea9acc60822efcd21650b81c 13976 vcftools_0.1.17-1.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQIzBAEBCgAdFiEEmjwHvQbeL0FugTpdYS7xYT4FD1QFAmioDBAACgkQYS7xYT4F D1Q73Q//Zm8qjx82MxGPS8IJ6omIyIZJo4FwgJeQxQvwZW1q04Icr1JVtN0l9Zcc PrOa+aop9dUK9PnwxV2wmPLSRM/MijAi4dLL0UuY512xULhPGzhbgTw4kn+vTkn+ EckS/FVWakelHpw31yvubNg0VKdoN6FaiD9H8gEpIgTadE+gPRZRQ0OyJUNdRnlT ZokNAC8XSfycx418UwVyMdw3y34wnNdvAhqLsZ4oZwFEXKL4i8oY3ZZMxitVdZ73 MtoRUYxiYWxoaeM3TKPF/yMR/Ub2Scxgm1eKwzgj/kvx5n2iJ46cTnxlp/05wx8R aewmsBtm+plcQVFOCJ4Wg17CtdiCjNmzMKZPf5eUDffLbHSYjjQEFmXh6VtliOzo 2fL8s5JPye/0/ybmJbVxmacqL4DAG/bth7trWHvp/HL0OwCX67UL3ryPN0k6bXf9 ku0xXoIVR86iRhqDwEiXqbv16JQVEuPkEOYGtd5RDQWrOIjzgyQwiUGh3iz8fINO GwxyKjqOi1XZcVQgAOIXvAqUfi7dB3h3SAaMq/m5C6sD3gTRheoKu/HWd7UG2WhV twN4kxT3IxoeD+2ZgUwNqmrkPz5ZeNAMbOvi1bOSz2rJKlNMD7BeM6eP3ESxlBdS 2JpN58Q1iHT3O0BJV7oWmEWYp7kx2DIah6nd8sh7yB6wzDXM/yA= =Xkn7 -----END PGP SIGNATURE----- Thu Oct 30 22:44:35 UTC 2025 I: Checking whether the package is not for us Thu Oct 30 22:44:35 UTC 2025 I: Starting 1st build on remote node codethink03-arm64.debian.net. Thu Oct 30 22:44:35 UTC 2025 I: Preparing to do remote build '1' on codethink03-arm64.debian.net. Thu Oct 30 22:44:35 UTC 2025 - checking /var/lib/jenkins/offline_nodes if codethink03-arm64.debian.net is marked as down. Thu Oct 30 22:44:35 UTC 2025 - checking via ssh if codethink03-arm64.debian.net is up. removed '/tmp/read-only-fs-test-QfNLJi' ==================================================================================== Thu Oct 30 22:44:36 UTC 2025 - running /srv/jenkins/bin/reproducible_build.sh (for job /srv/jenkins/bin/reproducible_build.sh) on codethink03-arm64, called using "1 vcftools forky /srv/reproducible-results/rbuild-debian/r-b-build.7IOTWDbZ 0.1.17-1" as arguments. Thu Oct 30 22:44:36 UTC 2025 - actually running "reproducible_build.sh" (md5sum cc591790ab2c8e13f5e554202b95c89c) as "/tmp/jenkins-script-DpZfGEsu" $ git clone https://salsa.debian.org/qa/jenkins.debian.net.git ; more CONTRIBUTING Thu Oct 30 22:44:36 UTC 2025 I: Downloading source for forky/vcftools=0.1.17-1 Reading package lists... NOTICE: 'vcftools' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/vcftools.git Please use: git clone https://salsa.debian.org/med-team/vcftools.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 264 kB of source archives. Get:1 http://deb.debian.org/debian forky/main vcftools 0.1.17-1 (dsc) [2043 B] Get:2 http://deb.debian.org/debian forky/main vcftools 0.1.17-1 (tar) [248 kB] Get:3 http://deb.debian.org/debian forky/main vcftools 0.1.17-1 (diff) [14.0 kB] Fetched 264 kB in 0s (8942 kB/s) Download complete and in download only mode Reading package lists... NOTICE: 'vcftools' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/vcftools.git Please use: git clone https://salsa.debian.org/med-team/vcftools.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 264 kB of source archives. Get:1 http://deb.debian.org/debian forky/main vcftools 0.1.17-1 (dsc) [2043 B] Get:2 http://deb.debian.org/debian forky/main vcftools 0.1.17-1 (tar) [248 kB] Get:3 http://deb.debian.org/debian forky/main vcftools 0.1.17-1 (diff) [14.0 kB] Fetched 264 kB in 0s (8942 kB/s) Download complete and in download only mode ============================================================================= Building vcftools in forky on arm64 on codethink03-arm64 now. Date: Thu Oct 30 22:44:37 GMT 2025 Date UTC: Thu Oct 30 22:44:37 UTC 2025 ============================================================================= W: /root/.pbuilderrc does not exist I: Logging to b1/build.log I: pbuilder: network access will be disabled during build I: Current time: Thu Oct 30 10:44:37 -12 2025 I: pbuilder-time-stamp: 1761864277 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/forky-reproducible-base.tgz] tar: ./build: time stamp 2026-11-30 05:47:35 is 34196577.15942707 s in the future tar: ./dev/ptmx: time stamp 2026-11-30 05:47:21 is 34196563.15879655 s in the future tar: ./dev/pts: time stamp 2026-11-30 05:47:21 is 34196563.15878131 s in the future tar: ./dev/console: time stamp 2026-11-30 05:47:21 is 34196563.15877279 s in the future tar: ./dev/tty: time stamp 2026-11-30 05:47:21 is 34196563.15876447 s in the future tar: ./dev/urandom: time stamp 2026-11-30 05:47:21 is 34196563.15875503 s in the future tar: ./dev/random: time stamp 2026-11-30 05:47:21 is 34196563.15874643 s in the future tar: ./dev/full: time stamp 2026-11-30 05:47:21 is 34196563.15873743 s in the future tar: ./dev/zero: time stamp 2026-11-30 05:47:21 is 34196563.15872911 s in the future tar: ./dev/null: time stamp 2026-11-30 05:47:21 is 34196563.15872079 s in the future tar: ./etc/group: time stamp 2026-11-30 05:47:39 is 34196581.15859363 s in the future tar: ./etc/group-: time stamp 2026-11-30 05:47:21 is 34196563.15858119 s in the future tar: ./etc/gshadow: time stamp 2026-11-30 05:47:39 is 34196581.15854543 s in the future tar: ./etc/passwd: time stamp 2026-11-30 05:47:39 is 34196581.15852051 s in the future tar: ./etc/passwd-: time stamp 2026-11-30 05:47:21 is 34196563.15850243 s in the future tar: ./etc/shadow: time stamp 2026-11-30 05:47:39 is 34196581.15848247 s in the future tar: ./etc/.pwd.lock: time stamp 2026-11-30 05:47:39 is 34196581.15846763 s in the future tar: ./etc/selinux: time stamp 2026-11-30 05:47:38 is 34196580.15844467 s in the future tar: ./etc/perl/Net: time stamp 2026-11-30 05:47:35 is 34196577.15839655 s in the future tar: ./etc/perl: time stamp 2026-11-30 05:47:34 is 34196576.15839127 s in the future tar: ./etc/kernel: time stamp 2026-11-30 05:47:26 is 34196568.15837195 s in the future tar: ./etc/environment: time stamp 2026-11-30 05:47:26 is 34196568.15836047 s in the future tar: ./etc/shells: time stamp 2026-11-30 05:47:25 is 34196567.15833815 s in the future tar: ./etc/opt: time stamp 2026-11-30 05:47:21 is 34196563.15832847 s in the future tar: ./etc/subgid: time stamp 2026-11-30 05:47:21 is 34196563.15829819 s in the future tar: ./etc/subuid: time stamp 2026-11-30 05:47:21 is 34196563.15828903 s in the future tar: ./etc/fstab: time stamp 2026-11-30 05:47:21 is 34196563.15827711 s in the future tar: ./etc/terminfo: time stamp 2026-11-30 05:47:25 is 34196567.15825871 s in the future tar: ./etc/pam.d/common-session-noninteractive: time stamp 2026-11-30 05:47:26 is 34196568.15810423 s in the future tar: ./etc/pam.d/common-session: time stamp 2026-11-30 05:47:26 is 34196568.15771895 s in the future tar: ./etc/pam.d/common-password: time stamp 2026-11-30 05:47:26 is 34196568.15769855 s in the future tar: ./etc/pam.d/common-account: time stamp 2026-11-30 05:47:26 is 34196568.15768515 s in the future tar: ./etc/pam.d/common-auth: time stamp 2026-11-30 05:47:26 is 34196568.15767379 s in the future tar: ./etc/pam.d: time stamp 2026-12-01 16:41:49 is 34322231.15761655 s in the future tar: ./etc/security/opasswd: time stamp 2026-11-30 05:47:26 is 34196568.15759135 s in the future tar: ./etc/security: time stamp 2026-11-30 05:47:26 is 34196568.15746667 s in the future tar: ./etc/ld.so.conf.d: time stamp 2026-11-30 05:47:40 is 34196582.15742659 s in the future tar: ./etc/logrotate.d: time stamp 2026-11-30 05:47:40 is 34196582.15678815 s in the future tar: ./etc/cron.daily: time stamp 2026-11-30 05:47:40 is 34196582.15669751 s in the future tar: ./etc/apt/trusted.gpg.d: time stamp 2026-11-30 05:47:35 is 34196577.15545143 s in the future tar: ./etc/apt/apt.conf.d/15pbuilder: time stamp 2026-11-30 05:47:35 is 34196577.15534955 s in the future tar: ./etc/apt/apt.conf.d/80proxy: time stamp 2026-11-30 05:48:05 is 34196607.15499487 s in the future tar: ./etc/apt/apt.conf.d: time stamp 2026-11-30 05:48:05 is 34196607.15495623 s in the future tar: ./etc/apt/sources.list: time stamp 2026-11-30 05:48:05 is 34196607.15480615 s in the future tar: ./etc/apt: time stamp 2026-11-30 05:48:05 is 34196607.15477327 s in the future tar: ./etc/update-motd.d: time stamp 2026-11-30 05:47:25 is 34196567.15471751 s in the future tar: ./etc/skel: time stamp 2026-11-30 05:47:25 is 34196567.15464983 s in the future tar: ./etc/dpkg/dpkg.cfg.d/02speedup: time stamp 2026-11-30 05:48:05 is 34196607.15424907 s in the future tar: ./etc/dpkg/dpkg.cfg.d: time stamp 2026-11-30 05:48:05 is 34196607.15424083 s in the future tar: ./etc/dpkg/origins/default: time stamp 2026-11-30 05:47:21 is 34196563.15421407 s in the future tar: ./etc/dpkg/origins: time stamp 2026-11-30 05:47:25 is 34196567.15419683 s in the future tar: ./etc/dpkg: time stamp 2026-11-30 05:47:35 is 34196577.15419151 s in the future tar: ./etc/default: time stamp 2026-11-30 05:47:39 is 34196581.15416243 s in the future tar: ./etc/ld.so.cache: time stamp 2026-12-01 22:29:40 is 34343102.15413975 s in the future tar: ./media: time stamp 2026-11-30 05:47:21 is 34196563.15411351 s in the future tar: ./mnt: time stamp 2026-11-30 05:47:21 is 34196563.15410511 s in the future tar: ./opt: time stamp 2026-11-30 05:47:21 is 34196563.15409615 s in the future tar: ./root: time stamp 2026-11-30 05:47:21 is 34196563.15406119 s in the future tar: ./run/lock: time stamp 2026-11-30 05:47:21 is 34196563.15403419 s in the future tar: ./srv: time stamp 2026-11-30 05:47:21 is 34196563.15401451 s in the future tar: ./usr/local/man: time stamp 2026-11-30 05:47:21 is 34196563.15398623 s in the future tar: ./usr/local/etc: time stamp 2026-11-30 05:47:21 is 34196563.15397375 s in the future tar: ./usr/local/src: time stamp 2026-11-30 05:47:21 is 34196563.15396491 s in the future tar: ./usr/local/sbin: time stamp 2026-11-30 05:47:21 is 34196563.15395635 s in the future tar: ./usr/local/include: time stamp 2026-11-30 05:47:21 is 34196563.15394811 s in the future tar: ./usr/local/libexec: time stamp 2026-11-30 05:47:21 is 34196563.15394015 s in the future tar: ./usr/local/lib: time stamp 2026-11-30 05:47:21 is 34196563.15393219 s in the future tar: ./usr/local/games: time stamp 2026-11-30 05:47:21 is 34196563.15392287 s in the future tar: ./usr/local/bin: time stamp 2026-11-30 05:47:21 is 34196563.15391455 s in the future tar: ./usr/local/share/man: time stamp 2026-11-30 05:47:21 is 34196563.15390211 s in the future tar: ./usr/local/share: time stamp 2026-11-30 05:47:21 is 34196563.15389075 s in the future tar: ./usr/local: time stamp 2026-11-30 05:47:21 is 34196563.15388615 s in the future tar: ./usr/libexec/gcc/aarch64-linux-gnu/15: time stamp 2026-12-01 22:29:40 is 34343101.31157447 s in the future tar: ./usr/libexec/gcc/aarch64-linux-gnu: time stamp 2026-11-30 05:47:27 is 34196568.31153807 s in the future tar: ./usr/libexec/gcc: time stamp 2026-11-30 05:47:27 is 34196568.31153211 s in the future tar: ./usr/libexec/libselinux: time stamp 2026-11-30 05:47:24 is 34196565.31128715 s in the future tar: ./usr/libexec/dpkg: time stamp 2026-11-30 05:47:22 is 34196563.31124119 s in the future tar: ./usr/libexec/coreutils: time stamp 2026-11-30 05:47:22 is 34196563.31080639 s in the future tar: ./usr/libexec: time stamp 2026-11-30 05:47:27 is 34196568.31078831 s in the future tar: ./usr/share/initramfs-tools/hooks: time stamp 2026-11-30 05:47:39 is 34196580.31074435 s in the future tar: ./usr/share/initramfs-tools: time stamp 2026-11-30 05:47:39 is 34196580.31073147 s in the future tar: ./usr/share/fish/completions: time stamp 2026-11-30 05:47:35 is 34196576.27695083 s in the future tar: ./usr/share/fish: time stamp 2026-11-30 05:47:35 is 34196576.27691555 s in the future tar: ./usr/share/perl/5.40.1/warnings: time stamp 2026-11-30 05:47:35 is 34196576.26554103 s in the future tar: ./usr/share/perl/5.40.1/version: time stamp 2026-11-30 05:47:35 is 34196576.26520819 s in the future tar: ./usr/share/perl/5.40.1/unicore/lib/XIDS: time stamp 2026-11-30 05:47:35 is 34196576.24926451 s in the future tar: ./usr/share/perl/5.40.1/unicore/lib/XIDC: time stamp 2026-11-30 05:47:35 is 34196576.24919867 s in the future tar: ./usr/share/perl/5.40.1/unicore/lib/WB: time stamp 2026-11-30 05:47:35 is 34196576.24858435 s in the future tar: ./usr/share/perl/5.40.1/unicore/lib/Vo: time stamp 2026-11-30 05:47:35 is 34196576.24850695 s in the future tar: ./usr/share/perl/5.40.1/unicore/lib/VS: time stamp 2026-11-30 05:47:35 is 34196576.24848579 s in the future tar: ./usr/share/perl/5.40.1/unicore/lib/Upper: time stamp 2026-11-30 05:47:35 is 34196576.24844735 s in the future tar: ./usr/share/perl/5.40.1/unicore/lib/UIdeo: time stamp 2026-11-30 05:47:35 is 34196576.24841999 s in the future tar: ./usr/share/perl/5.40.1/unicore/lib/Term: time stamp 2026-11-30 05:47:35 is 34196576.24838975 s in the future tar: ./usr/share/perl/5.40.1/unicore/lib/Scx: time stamp 2026-11-30 05:47:35 is 34196576.24709343 s in the future tar: ./usr/share/perl/5.40.1/unicore/lib/Sc: time stamp 2026-11-30 05:47:35 is 34196576.24621703 s in the future tar: ./usr/share/perl/5.40.1/unicore/lib/STerm: time stamp 2026-11-30 05:47:35 is 34196576.24618191 s in the future tar: ./usr/share/perl/5.40.1/unicore/lib/SD: time stamp 2026-11-30 05:47:35 is 34196576.24616175 s in the future tar: ./usr/share/perl/5.40.1/unicore/lib/SB: time stamp 2026-11-30 05:47:35 is 34196576.24600099 s in the future tar: ./usr/share/perl/5.40.1/unicore/lib/QMark: time stamp 2026-11-30 05:47:35 is 34196576.24597875 s in the future tar: ./usr/share/perl/5.40.1/unicore/lib/Perl: time stamp 2026-11-30 05:47:35 is 34196576.24491651 s in the future tar: ./usr/share/perl/5.40.1/unicore/lib/PatSyn: time stamp 2026-11-30 05:47:35 is 34196576.24488127 s in the future tar: ./usr/share/perl/5.40.1/unicore/lib/PCM: time stamp 2026-11-30 05:47:35 is 34196576.24486023 s in the future tar: ./usr/share/perl/5.40.1/unicore/lib/Nv: time stamp 2026-11-30 05:47:35 is 34196576.24381483 s in the future tar: ./usr/share/perl/5.40.1/unicore/lib/Nt: time stamp 2026-11-30 05:47:35 is 34196576.24352607 s in the future tar: ./usr/share/perl/5.40.1/unicore/lib/NFKDQC: time stamp 2026-11-30 05:47:35 is 34196576.24327627 s in the future tar: ./usr/share/perl/5.40.1/unicore/lib/NFKCQC: time stamp 2026-11-30 05:47:35 is 34196576.24320251 s in the future tar: ./usr/share/perl/5.40.1/unicore/lib/NFDQC: time stamp 2026-11-30 05:47:35 is 34196576.24312823 s in the future tar: ./usr/share/perl/5.40.1/unicore/lib/NFCQC: time stamp 2026-11-30 05:47:35 is 34196576.24286663 s in the future tar: 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the future tar: ./usr/share/man: time stamp 2026-11-30 05:47:39 is 34196575.37512231 s in the future tar: ./usr/share/locale/af/LC_TIME: time stamp 2026-11-30 05:47:22 is 34196558.37511423 s in the future tar: ./usr/share/locale/af: time stamp 2026-11-30 05:47:19 is 34196555.37510811 s in the future tar: ./usr/share/locale/bg/LC_TIME: time stamp 2026-11-30 05:47:22 is 34196558.37510079 s in the future tar: ./usr/share/locale/bg: time stamp 2026-11-30 05:47:19 is 34196555.37509467 s in the future tar: ./usr/share/locale/ca/LC_TIME: time stamp 2026-11-30 05:47:22 is 34196558.37508687 s in the future tar: ./usr/share/locale/ca: time stamp 2026-11-30 05:47:19 is 34196555.37508091 s in the future tar: ./usr/share/locale/cs/LC_TIME: time stamp 2026-11-30 05:47:22 is 34196558.37507295 s in the future tar: ./usr/share/locale/cs: time stamp 2026-11-30 05:47:19 is 34196555.37506695 s in the future tar: ./usr/share/locale/da/LC_TIME: time stamp 2026-11-30 05:47:22 is 34196558.37505951 s in the future tar: ./usr/share/locale/da: time stamp 2026-11-30 05:47:19 is 34196555.37505343 s in the future tar: ./usr/share/locale/de/LC_TIME: time stamp 2026-11-30 05:47:22 is 34196558.37504643 s in the future tar: ./usr/share/locale/de: time stamp 2026-11-30 05:47:19 is 34196555.37504059 s in the future tar: ./usr/share/locale/el/LC_TIME: time stamp 2026-11-30 05:47:22 is 34196558.37503335 s in the future tar: ./usr/share/locale/el: time stamp 2026-11-30 05:47:19 is 34196555.37502659 s in the future tar: ./usr/share/locale/eo/LC_TIME: time stamp 2026-11-30 05:47:22 is 34196558.37501947 s in the future tar: ./usr/share/locale/eo: time stamp 2026-11-30 05:47:19 is 34196555.37501315 s in the future tar: ./usr/share/locale/es/LC_TIME: time stamp 2026-11-30 05:47:22 is 34196558.37500595 s in the future tar: ./usr/share/locale/es: time stamp 2026-11-30 05:47:19 is 34196555.37499935 s in the future tar: ./usr/share/locale/et/LC_TIME: time stamp 2026-11-30 05:47:22 is 34196558.37499111 s in the future tar: ./usr/share/locale/et: time stamp 2026-11-30 05:47:19 is 34196555.37498471 s in the future tar: ./usr/share/locale/fi/LC_TIME: time stamp 2026-11-30 05:47:22 is 34196558.37497659 s in the future tar: ./usr/share/locale/fi: time stamp 2026-11-30 05:47:19 is 34196555.37497035 s in the future tar: ./usr/share/locale/fr/LC_TIME: time stamp 2026-11-30 05:47:22 is 34196558.37496279 s in the future tar: ./usr/share/locale/fr: time stamp 2026-11-30 05:47:19 is 34196555.37495647 s in the future tar: ./usr/share/locale/ga/LC_TIME: time stamp 2026-11-30 05:47:22 is 34196558.37494915 s in the future tar: ./usr/share/locale/ga: time stamp 2026-11-30 05:47:19 is 34196555.37494327 s in the future tar: ./usr/share/locale/gl/LC_TIME: time stamp 2026-11-30 05:47:22 is 34196558.37493563 s in the future tar: ./usr/share/locale/gl: time stamp 2026-11-30 05:47:19 is 34196555.37492931 s in the future tar: ./usr/share/locale/hr/LC_TIME: time stamp 2026-11-30 05:47:22 is 34196558.37492167 s in the future tar: ./usr/share/locale/hr: time stamp 2026-11-30 05:47:19 is 34196555.37489355 s in the future tar: ./usr/share/locale/hu/LC_TIME: time stamp 2026-11-30 05:47:22 is 34196558.37488435 s in the future tar: ./usr/share/locale/hu: time stamp 2026-11-30 05:47:19 is 34196555.37487799 s in the future tar: ./usr/share/locale/id/LC_TIME: time stamp 2026-11-30 05:47:22 is 34196558.37487015 s in the future tar: ./usr/share/locale/id: time stamp 2026-11-30 05:47:19 is 34196555.37486323 s in the future tar: ./usr/share/locale/it/LC_TIME: time stamp 2026-11-30 05:47:22 is 34196558.37485615 s in the future tar: ./usr/share/locale/it: time stamp 2026-11-30 05:47:19 is 34196555.37485019 s in the future tar: ./usr/share/locale/ja/LC_TIME: time stamp 2026-11-30 05:47:22 is 34196558.37484271 s in the future tar: ./usr/share/locale/ja: time stamp 2026-11-30 05:47:19 is 34196555.37483643 s in the future tar: ./usr/share/locale/ka/LC_TIME: time stamp 2026-11-30 05:47:22 is 34196558.37482887 s in the future tar: ./usr/share/locale/ka: time stamp 2026-11-30 05:47:19 is 34196555.37482251 s in the future tar: ./usr/share/locale/ko/LC_TIME: time stamp 2026-11-30 05:47:22 is 34196558.37481459 s in the future tar: ./usr/share/locale/ko: time stamp 2026-11-30 05:47:19 is 34196555.37480855 s in the future tar: ./usr/share/locale/lt/LC_TIME: time stamp 2026-11-30 05:47:22 is 34196558.37480143 s in the future tar: ./usr/share/locale/lt: time stamp 2026-11-30 05:47:19 is 34196555.37479499 s in the future tar: ./usr/share/locale/nb/LC_TIME: time stamp 2026-11-30 05:47:22 is 34196558.37478739 s in the future tar: ./usr/share/locale/nb: time stamp 2026-11-30 05:47:19 is 34196555.37478131 s in the future tar: ./usr/share/locale/nl/LC_TIME: time stamp 2026-11-30 05:47:22 is 34196558.37477351 s in the future tar: ./usr/share/locale/nl: time stamp 2026-11-30 05:47:19 is 34196555.37476715 s in the future tar: ./usr/share/locale/pl/LC_TIME: time stamp 2026-11-30 05:47:22 is 34196558.37475951 s in the future tar: ./usr/share/locale/pl: time stamp 2026-11-30 05:47:19 is 34196555.37475339 s in the future tar: ./usr/share/locale/pt/LC_TIME: time stamp 2026-11-30 05:47:22 is 34196558.37474631 s in the future tar: ./usr/share/locale/pt: time stamp 2026-11-30 05:47:19 is 34196555.37473975 s in the future tar: ./usr/share/locale/pt_BR/LC_TIME: time stamp 2026-11-30 05:47:22 is 34196558.37473155 s in the future tar: ./usr/share/locale/pt_BR: time stamp 2026-11-30 05:47:19 is 34196555.37472559 s in the future tar: ./usr/share/locale/ro/LC_TIME: time stamp 2026-11-30 05:47:22 is 34196558.37471799 s in the future tar: ./usr/share/locale/ro: time stamp 2026-11-30 05:47:19 is 34196555.37471147 s in the future tar: ./usr/share/locale/ru/LC_TIME: time stamp 2026-11-30 05:47:22 is 34196558.37470423 s in the future tar: ./usr/share/locale/ru: time stamp 2026-11-30 05:47:19 is 34196555.37469795 s in the future tar: ./usr/share/locale/sk/LC_TIME: time stamp 2026-11-30 05:47:22 is 34196558.37469083 s in the future tar: ./usr/share/locale/sk: time stamp 2026-11-30 05:47:19 is 34196555.37468467 s in the future tar: ./usr/share/locale/sl/LC_TIME: time stamp 2026-11-30 05:47:22 is 34196558.37467691 s in the future tar: ./usr/share/locale/sl: time stamp 2026-11-30 05:47:19 is 34196555.37467035 s in the future tar: ./usr/share/locale/sr/LC_TIME: time stamp 2026-11-30 05:47:22 is 34196558.37466335 s in the future tar: ./usr/share/locale/sr: time stamp 2026-11-30 05:47:19 is 34196555.37465755 s in the future tar: ./usr/share/locale/sv/LC_TIME: time stamp 2026-11-30 05:47:22 is 34196558.37465047 s in the future tar: ./usr/share/locale/sv: time stamp 2026-11-30 05:47:19 is 34196555.37464447 s in the future tar: ./usr/share/locale/tr/LC_TIME: time stamp 2026-11-30 05:47:22 is 34196558.37463695 s in the future tar: ./usr/share/locale/tr: time stamp 2026-11-30 05:47:19 is 34196555.37463035 s in the future tar: ./usr/share/locale/uk/LC_TIME: time stamp 2026-11-30 05:47:22 is 34196558.37462279 s in the future tar: ./usr/share/locale/uk: time stamp 2026-11-30 05:47:19 is 34196555.37461595 s in the future tar: ./usr/share/locale/vi/LC_TIME: time stamp 2026-11-30 05:47:22 is 34196558.37460847 s in the future tar: ./usr/share/locale/vi: time stamp 2026-11-30 05:47:19 is 34196555.37460251 s in the future tar: ./usr/share/locale/zh_CN/LC_TIME: time stamp 2026-11-30 05:47:22 is 34196558.37459419 s in the future tar: ./usr/share/locale/zh_CN: time stamp 2026-11-30 05:47:19 is 34196555.37458815 s in the future tar: ./usr/share/locale/zh_TW/LC_TIME: time stamp 2026-11-30 05:47:22 is 34196558.37458059 s in the future tar: ./usr/share/locale/zh_TW: time stamp 2026-11-30 05:47:19 is 34196555.37457419 s in the future tar: ./usr/share/locale/be/LC_TIME: time stamp 2026-11-30 05:47:22 is 34196558.37456667 s in the future tar: ./usr/share/locale/eu/LC_TIME: time stamp 2026-11-30 05:47:22 is 34196558.37455583 s in the future tar: ./usr/share/locale/ia/LC_TIME: time stamp 2026-11-30 05:47:22 is 34196558.37454475 s in the future tar: ./usr/share/locale/kk/LC_TIME: time stamp 2026-11-30 05:47:22 is 34196558.37453331 s in the future tar: ./usr/share/locale/lg/LC_TIME: time stamp 2026-11-30 05:47:22 is 34196558.37452227 s in the future tar: ./usr/share/locale/ms/LC_TIME: time stamp 2026-11-30 05:47:22 is 34196558.37451099 s in the future tar: ./usr/share/locale/ta/LC_TIME: time stamp 2026-11-30 05:47:22 is 34196558.37450027 s in the future tar: ./usr/share/locale: time stamp 2026-11-30 05:47:39 is 34196575.37449007 s in the future tar: ./usr/share/aptitude: time stamp 2026-11-30 05:47:39 is 34196575.37448283 s in the future tar: ./usr/share: time stamp 2026-11-30 05:47:39 is 34196575.37447719 s in the future tar: ./usr: time stamp 2026-11-30 05:47:21 is 34196557.37447191 s in the future tar: ./etc/alternatives: time stamp 2026-11-30 05:47:40 is 34196576.37446011 s in the future tar: ./etc/systemd/system/timers.target.wants: time stamp 2026-11-30 05:47:35 is 34196571.37445283 s in the future tar: ./etc/systemd/system: time stamp 2026-11-30 05:47:21 is 34196557.37444691 s in the future I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [vcftools_0.1.17-1.dsc] I: copying [./vcftools_0.1.17.orig.tar.gz] I: copying [./vcftools_0.1.17-1.debian.tar.xz] I: Extracting source dpkg-source: warning: cannot verify inline signature for ./vcftools_0.1.17-1.dsc: no acceptable signature found dpkg-source: info: extracting vcftools in vcftools-0.1.17 dpkg-source: info: unpacking vcftools_0.1.17.orig.tar.gz dpkg-source: info: unpacking vcftools_0.1.17-1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying temporary_test_fix.patch dpkg-source: info: applying spelling.patch dpkg-source: info: applying manpage.patch dpkg-source: info: applying 0001-vcf-fix-ploidy-make-p-work-without-.-on-INC.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/3574780/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='arm64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 ' DISTRIBUTION='forky' HOME='/root' HOST_ARCH='arm64' IFS=' ' INVOCATION_ID='1f1da193a55c414991b2ac5448a6e0ad' 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='3574780' PS1='# ' PS2='> ' 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.7IOTWDbZ/pbuilderrc_CFQQ --distribution forky --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/forky-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.7IOTWDbZ/b1 --logfile b1/build.log vcftools_0.1.17-1.dsc' SUDO_GID='109' SUDO_HOME='/var/lib/jenkins' SUDO_UID='104' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://192.168.101.4:3128' I: uname -a Linux codethink03-arm64 6.12.48+deb13-cloud-arm64 #1 SMP Debian 6.12.48-1 (2025-09-20) aarch64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Aug 10 12:30 /bin -> usr/bin I: user script /srv/workspace/pbuilder/3574780/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: arm64 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13), pkgconf, zlib1g-dev dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19971 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on pkgconf; however: Package pkgconf is not installed. pbuilder-satisfydepends-dummy depends on zlib1g-dev; however: Package zlib1g-dev is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libdebhelper-perl{a} libelf1t64{a} libfile-stripnondeterminism-perl{a} libmagic-mgc{a} libmagic1t64{a} libpipeline1{a} libpkgconf3{a} libtool{a} libuchardet0{a} libunistring5{a} libxml2-16{a} m4{a} man-db{a} pkgconf{a} pkgconf-bin{a} po-debconf{a} sensible-utils{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: curl libarchive-cpio-perl libltdl-dev libmail-sendmail-perl lynx wget 0 packages upgraded, 33 newly installed, 0 to remove and 0 not upgraded. Need to get 12.0 MB of archives. After unpacking 46.6 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian forky/main arm64 sensible-utils all 0.0.26 [27.0 kB] Get: 2 http://deb.debian.org/debian forky/main arm64 libmagic-mgc arm64 1:5.46-5 [338 kB] Get: 3 http://deb.debian.org/debian forky/main arm64 libmagic1t64 arm64 1:5.46-5 [103 kB] Get: 4 http://deb.debian.org/debian forky/main arm64 file arm64 1:5.46-5 [43.7 kB] Get: 5 http://deb.debian.org/debian forky/main arm64 gettext-base arm64 0.23.1-2+b1 [241 kB] Get: 6 http://deb.debian.org/debian forky/main arm64 libuchardet0 arm64 0.0.8-2 [69.0 kB] Get: 7 http://deb.debian.org/debian forky/main arm64 groff-base arm64 1.23.0-9 [1130 kB] Get: 8 http://deb.debian.org/debian forky/main arm64 bsdextrautils arm64 2.41.2-4 [97.3 kB] Get: 9 http://deb.debian.org/debian forky/main arm64 libpipeline1 arm64 1.5.8-1 [40.2 kB] Get: 10 http://deb.debian.org/debian forky/main arm64 man-db arm64 2.13.1-1 [1453 kB] Get: 11 http://deb.debian.org/debian forky/main arm64 m4 arm64 1.4.20-2 [315 kB] Get: 12 http://deb.debian.org/debian forky/main arm64 autoconf all 2.72-3.1 [494 kB] Get: 13 http://deb.debian.org/debian forky/main arm64 autotools-dev all 20240727.1 [60.2 kB] Get: 14 http://deb.debian.org/debian forky/main arm64 automake all 1:1.18.1-2 [877 kB] Get: 15 http://deb.debian.org/debian forky/main arm64 autopoint all 0.23.1-2 [770 kB] Get: 16 http://deb.debian.org/debian forky/main arm64 libdebhelper-perl all 13.28 [92.4 kB] Get: 17 http://deb.debian.org/debian forky/main arm64 libtool all 2.5.4-7 [540 kB] Get: 18 http://deb.debian.org/debian forky/main arm64 dh-autoreconf all 21 [12.2 kB] Get: 19 http://deb.debian.org/debian forky/main arm64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 20 http://deb.debian.org/debian forky/main arm64 libfile-stripnondeterminism-perl all 1.15.0-1 [19.9 kB] Get: 21 http://deb.debian.org/debian forky/main arm64 dh-strip-nondeterminism all 1.15.0-1 [8812 B] Get: 22 http://deb.debian.org/debian forky/main arm64 libelf1t64 arm64 0.193-3 [189 kB] Get: 23 http://deb.debian.org/debian forky/main arm64 dwz arm64 0.16-2 [100 kB] Get: 24 http://deb.debian.org/debian forky/main arm64 libunistring5 arm64 1.3-2 [453 kB] Get: 25 http://deb.debian.org/debian forky/main arm64 libxml2-16 arm64 2.14.6+dfsg-0.1 [601 kB] Get: 26 http://deb.debian.org/debian forky/main arm64 gettext arm64 0.23.1-2+b1 [1612 kB] Get: 27 http://deb.debian.org/debian forky/main arm64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 28 http://deb.debian.org/debian forky/main arm64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 29 http://deb.debian.org/debian forky/main arm64 debhelper all 13.28 [941 kB] Get: 30 http://deb.debian.org/debian forky/main arm64 libpkgconf3 arm64 1.8.1-4 [35.3 kB] Get: 31 http://deb.debian.org/debian forky/main arm64 pkgconf-bin arm64 1.8.1-4 [29.6 kB] Get: 32 http://deb.debian.org/debian forky/main arm64 pkgconf arm64 1.8.1-4 [26.1 kB] Get: 33 http://deb.debian.org/debian forky/main arm64 zlib1g-dev arm64 1:1.3.dfsg+really1.3.1-1+b1 [917 kB] Fetched 12.0 MB in 0s (77.9 MB/s) Preconfiguring packages ... Selecting previously unselected package sensible-utils. (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 ... 19971 files and directories currently installed.) Preparing to unpack .../00-sensible-utils_0.0.26_all.deb ... Unpacking sensible-utils (0.0.26) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../01-libmagic-mgc_1%3a5.46-5_arm64.deb ... Unpacking libmagic-mgc (1:5.46-5) ... Selecting previously unselected package libmagic1t64:arm64. Preparing to unpack .../02-libmagic1t64_1%3a5.46-5_arm64.deb ... Unpacking libmagic1t64:arm64 (1:5.46-5) ... Selecting previously unselected package file. Preparing to unpack .../03-file_1%3a5.46-5_arm64.deb ... Unpacking file (1:5.46-5) ... Selecting previously unselected package gettext-base. Preparing to unpack .../04-gettext-base_0.23.1-2+b1_arm64.deb ... Unpacking gettext-base (0.23.1-2+b1) ... Selecting previously unselected package libuchardet0:arm64. Preparing to unpack .../05-libuchardet0_0.0.8-2_arm64.deb ... Unpacking libuchardet0:arm64 (0.0.8-2) ... Selecting previously unselected package groff-base. Preparing to unpack .../06-groff-base_1.23.0-9_arm64.deb ... Unpacking groff-base (1.23.0-9) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../07-bsdextrautils_2.41.2-4_arm64.deb ... Unpacking bsdextrautils (2.41.2-4) ... Selecting previously unselected package libpipeline1:arm64. Preparing to unpack .../08-libpipeline1_1.5.8-1_arm64.deb ... 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Setting up gettext (0.23.1-2+b1) ... Setting up libtool (2.5.4-7) ... Setting up pkgconf:arm64 (1.8.1-4) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (21) ... Setting up dh-strip-nondeterminism (1.15.0-1) ... Setting up groff-base (1.23.0-9) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up man-db (2.13.1-1) ... Not building database; man-db/auto-update is not 'true'. Setting up debhelper (13.28) ... Processing triggers for libc-bin (2.41-12) ... Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package I: Running cd /build/reproducible-path/vcftools-0.1.17/ && 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 > ../vcftools_0.1.17-1_source.changes dpkg-buildpackage: info: source package vcftools dpkg-buildpackage: info: source version 0.1.17-1 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Dylan Aïssi dpkg-source --before-build . dpkg-buildpackage: info: host architecture arm64 debian/rules clean dh clean dh_clean rm -f debian/debhelper-build-stamp rm -rf debian/.debhelper/ rm -f -- debian/vcftools.substvars debian/files rm -fr -- debian/vcftools/ debian/tmp/ find . \( \( \ \( -path .\*/.git -o -path .\*/.svn -o -path .\*/.bzr -o -path .\*/.hg -o -path .\*/CVS -o -path .\*/.pc -o -path .\*/_darcs \) -prune -o -type f -a \ \( -name '#*#' -o -name '.*~' -o -name '*~' -o -name DEADJOE \ -o -name '*.orig' -o -name '*.rej' -o -name '*.bak' \ -o -name '.*.orig' -o -name .*.rej -o -name '.SUMS' \ -o -name TAGS -o \( -path '*/.deps/*' -a -name '*.P' \) \ \) -exec rm -f {} + \) -o \ \( -type d -a \( -name autom4te.cache -o -name __pycache__ \) -prune -exec rm -rf {} + \) \) debian/rules binary dh binary dh_update_autotools_config dh_autoreconf find ! -ipath "./debian/*" -a ! \( -path '*/.git/*' -o -path '*/.hg/*' -o -path '*/.bzr/*' -o -path '*/.svn/*' -o -path '*/CVS/*' \) -a -type f -exec md5sum {} + -o -type l -printf "symlink %p " > debian/autoreconf.before grep -q ^XDT_ configure.ac autoreconf -f -i configure.ac:16: installing './compile' configure.ac:12: installing './install-sh' configure.ac:12: installing './missing' src/cpp/Makefile.am: installing './depcomp' find ! -ipath "./debian/*" -a ! \( -path '*/.git/*' -o -path '*/.hg/*' -o -path '*/.bzr/*' -o -path '*/.svn/*' -o -path '*/CVS/*' \) -a -type f -exec md5sum {} + -o -type l -printf "symlink %p " > debian/autoreconf.after debian/rules override_dh_auto_configure make[1]: Entering directory '/build/reproducible-path/vcftools-0.1.17' dh_auto_configure -- --with-pmdir=/share/perl5 ./configure --build=aarch64-linux-gnu --prefix=/usr --includedir=\${prefix}/include --mandir=\${prefix}/share/man --infodir=\${prefix}/share/info --sysconfdir=/etc --localstatedir=/var --disable-option-checking --disable-silent-rules --libdir=\${prefix}/lib/aarch64-linux-gnu --runstatedir=/run --disable-maintainer-mode --disable-dependency-tracking --with-pmdir=/share/perl5 checking for a BSD-compatible install... /usr/bin/install -c checking whether sleep supports fractional seconds... yes checking filesystem timestamp resolution... 0.01 checking whether build environment is sane... yes checking for a race-free mkdir -p... /usr/bin/mkdir -p checking for gawk... no checking for mawk... mawk checking whether make sets $(MAKE)... yes checking whether make supports nested variables... yes checking xargs -n works... yes checking whether UID '1111' is supported by ustar format... yes checking whether GID '1111' is supported by ustar format... yes checking how to create a ustar tar archive... gnutar checking for g++... g++ checking whether the C++ compiler works... yes checking for C++ compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether the compiler supports GNU C++... yes checking whether g++ accepts -g... yes checking for g++ option to enable C++11 features... none needed checking whether make supports the include directive... yes (GNU style) checking dependency style of g++... none checking for gcc... gcc checking whether the compiler supports GNU C... yes checking whether gcc accepts -g... yes checking for gcc option to enable C11 features... none needed checking whether gcc understands -c and -o together... yes checking dependency style of gcc... none checking how to run the C preprocessor... gcc -E checking for perl... /usr/bin/perl checking for pkg-config... /usr/bin/pkg-config checking pkg-config is at least version 0.9.0... yes checking for zlib... yes checking for stdio.h... yes checking for stdlib.h... yes checking for string.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for strings.h... yes checking for sys/stat.h... yes checking for sys/types.h... yes checking for unistd.h... yes checking for arpa/inet.h... yes checking for fcntl.h... yes checking for limits.h... yes checking for netdb.h... yes checking for stdint.h... (cached) yes checking for stdlib.h... (cached) yes checking for string.h... (cached) yes checking for sys/socket.h... yes checking for unistd.h... (cached) yes checking for _Bool... yes checking for stdbool.h that conforms to C99 or later... yes checking for inline... inline checking for int16_t... yes checking for int32_t... yes checking for int64_t... yes checking for int8_t... yes checking for off_t... yes checking for size_t... yes checking for ssize_t... yes checking for uint16_t... yes checking for uint32_t... yes checking for uint8_t... yes checking for -Wdate-time -D_FORTIFY_SOURCE=2 option for large files... none needed checking for error_at_line... yes checking for gethostbyaddr... yes checking for gethostbyname... yes checking for malloc... yes checking for memset... yes checking for pow... no checking for realloc... yes checking for select... yes checking for socket... yes checking for sqrt... no checking for strchr... yes checking for strdup... yes checking for strerror... yes checking for strstr... yes checking for strtol... yes checking that generated files are newer than configure... done configure: creating ./config.status config.status: creating Makefile config.status: creating src/Makefile config.status: creating src/cpp/Makefile config.status: creating src/perl/Makefile config.status: creating config.h config.status: executing depfiles commands make[1]: Leaving directory '/build/reproducible-path/vcftools-0.1.17' dh_auto_build make -j12 make[1]: Entering directory '/build/reproducible-path/vcftools-0.1.17' make all-recursive make[2]: Entering directory '/build/reproducible-path/vcftools-0.1.17' Making all in src make[3]: Entering directory '/build/reproducible-path/vcftools-0.1.17/src' Making all in cpp make[4]: Entering directory '/build/reproducible-path/vcftools-0.1.17/src/cpp' g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-bcf_entry.o `test -f 'bcf_entry.cpp' || echo './'`bcf_entry.cpp g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-bcf_entry_setters.o `test -f 'bcf_entry_setters.cpp' || echo './'`bcf_entry_setters.cpp g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-bcf_file.o `test -f 'bcf_file.cpp' || echo './'`bcf_file.cpp gcc -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-bgzf.o `test -f 'bgzf.c' || echo './'`bgzf.c g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-dgeev.o `test -f 'dgeev.cpp' || echo './'`dgeev.cpp g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-entry.o `test -f 'entry.cpp' || echo './'`entry.cpp g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-entry_filters.o `test -f 'entry_filters.cpp' || echo './'`entry_filters.cpp g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-entry_getters.o `test -f 'entry_getters.cpp' || echo './'`entry_getters.cpp g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-entry_setters.o `test -f 'entry_setters.cpp' || echo './'`entry_setters.cpp g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-gamma.o `test -f 'gamma.cpp' || echo './'`gamma.cpp g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-header.o `test -f 'header.cpp' || echo './'`header.cpp gcc -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-knetfile.o `test -f 'knetfile.c' || echo './'`knetfile.c g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-output_log.o `test -f 'output_log.cpp' || echo './'`output_log.cpp bgzf.c: In function 'bgzf_check_EOF': bgzf.c:60:34: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 60 | #define _bgzf_read(fp, buf, len) fread((buf), 1, (len), (FILE*)(fp)) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ bgzf.c:622:9: note: in expansion of macro '_bgzf_read' 622 | _bgzf_read(fp->fp, buf, 28); | ^~~~~~~~~~ In file included from knetfile.c:46: knetfile.c: In function 'kftp_send_cmd': knetfile.h:9:32: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 9 | #define netwrite(fd, ptr, len) write(fd, ptr, len) | ^~~~~~~~~~~~~~~~~~~ knetfile.c:236:9: note: in expansion of macro 'netwrite' 236 | netwrite(ftp->ctrl_fd, cmd, strlen(cmd)); | ^~~~~~~~ knetfile.c: In function 'khttp_connect_file': knetfile.h:9:32: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 9 | #define netwrite(fd, ptr, len) write(fd, ptr, len) | ^~~~~~~~~~~~~~~~~~~ knetfile.c:415:9: note: in expansion of macro 'netwrite' 415 | netwrite(fp->fd, buf, l); | ^~~~~~~~ g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-parameters.o `test -f 'parameters.cpp' || echo './'`parameters.cpp g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-variant_file.o `test -f 'variant_file.cpp' || echo './'`variant_file.cpp g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-variant_file_diff.o `test -f 'variant_file_diff.cpp' || echo './'`variant_file_diff.cpp g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-variant_file_filters.o `test -f 'variant_file_filters.cpp' || echo './'`variant_file_filters.cpp g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-variant_file_format_convert.o `test -f 'variant_file_format_convert.cpp' || echo './'`variant_file_format_convert.cpp g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-variant_file_output.o `test -f 'variant_file_output.cpp' || echo './'`variant_file_output.cpp g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-vcf_entry.o `test -f 'vcf_entry.cpp' || echo './'`vcf_entry.cpp variant_file_filters.cpp: In member function 'void variant_file::filter_individuals_randomly(int)': variant_file_filters.cpp:129:23: warning: 'void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]' is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 129 | random_shuffle(keep_index.begin(), keep_index.end()); // Get a random order | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/15/algorithm:63, from variant_file.h:15, from variant_file_filters.cpp:7: /usr/include/c++/15/bits/stl_algo.h:4537:5: note: declared here 4537 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-vcf_entry_setters.o `test -f 'vcf_entry_setters.cpp' || echo './'`vcf_entry_setters.cpp g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-vcf_file.o `test -f 'vcf_file.cpp' || echo './'`vcf_file.cpp g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-vcftools.o `test -f 'vcftools.cpp' || echo './'`vcftools.cpp In file included from /usr/include/c++/15/bits/stl_algobase.h:64, from /usr/include/c++/15/algorithm:62, from variant_file.h:15, from variant_file_output.cpp:8: /usr/include/c++/15/bits/stl_pair.h: In instantiation of 'constexpr std::pair::type>::__type, typename std::__strip_reference_wrapper::type>::__type> std::make_pair(_T1&&, _T2&&) [with _T1 = double&; _T2 = double&; typename __strip_reference_wrapper::type>::__type = double; typename decay<_Tp>::type = double; typename __strip_reference_wrapper::type>::__type = double; typename decay<_Tp2>::type = double]': variant_file_output.cpp:4496:39: required from here 4496 | p_emission[ui].push_back(make_pair(p_emission_given_auto, p_emission_given_nonauto)); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_pair.h:1164:5: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 1164 | make_pair(_T1&& __x, _T2&& __y) | ^~~~~~~~~ g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wl,-z,relro -Wl,-z,now -o vcftools vcftools-bcf_entry.o vcftools-bcf_entry_setters.o vcftools-bcf_file.o vcftools-bgzf.o vcftools-dgeev.o vcftools-entry.o vcftools-entry_filters.o vcftools-entry_getters.o vcftools-entry_setters.o vcftools-gamma.o vcftools-header.o vcftools-knetfile.o vcftools-output_log.o vcftools-parameters.o vcftools-variant_file.o vcftools-variant_file_diff.o vcftools-variant_file_filters.o vcftools-variant_file_format_convert.o vcftools-variant_file_output.o vcftools-vcf_entry.o vcftools-vcf_entry_setters.o vcftools-vcf_file.o vcftools-vcftools.o -lz make[4]: Leaving directory '/build/reproducible-path/vcftools-0.1.17/src/cpp' Making all in perl make[4]: Entering directory '/build/reproducible-path/vcftools-0.1.17/src/perl' make[4]: Nothing to be done for 'all'. make[4]: Leaving directory '/build/reproducible-path/vcftools-0.1.17/src/perl' make[4]: Entering directory '/build/reproducible-path/vcftools-0.1.17/src' make[4]: Nothing to be done for 'all-am'. make[4]: Leaving directory '/build/reproducible-path/vcftools-0.1.17/src' make[3]: Leaving directory '/build/reproducible-path/vcftools-0.1.17/src' make[3]: Entering directory '/build/reproducible-path/vcftools-0.1.17' make[3]: Leaving directory '/build/reproducible-path/vcftools-0.1.17' make[2]: Leaving directory '/build/reproducible-path/vcftools-0.1.17' make[1]: Leaving directory '/build/reproducible-path/vcftools-0.1.17' dh_auto_test make -j12 check TESTSUITEFLAGS="-j12 --verbose" VERBOSE=1 make[1]: Entering directory '/build/reproducible-path/vcftools-0.1.17' Making check in src make[2]: Entering directory '/build/reproducible-path/vcftools-0.1.17/src' Making check in cpp make[3]: Entering directory '/build/reproducible-path/vcftools-0.1.17/src/cpp' make[3]: Nothing to be done for 'check'. make[3]: Leaving directory '/build/reproducible-path/vcftools-0.1.17/src/cpp' Making check in perl make[3]: Entering directory '/build/reproducible-path/vcftools-0.1.17/src/perl' make[3]: Nothing to be done for 'check'. make[3]: Leaving directory '/build/reproducible-path/vcftools-0.1.17/src/perl' make[3]: Entering directory '/build/reproducible-path/vcftools-0.1.17/src' make[3]: Nothing to be done for 'check-am'. make[3]: Leaving directory '/build/reproducible-path/vcftools-0.1.17/src' make[2]: Leaving directory '/build/reproducible-path/vcftools-0.1.17/src' make[2]: Entering directory '/build/reproducible-path/vcftools-0.1.17' make[2]: Leaving directory '/build/reproducible-path/vcftools-0.1.17' make[1]: Leaving directory '/build/reproducible-path/vcftools-0.1.17' rm -fr -- /tmp/dh-xdg-rundir-j1GV_vU2 create-stamp debian/debhelper-build-stamp dh_prep rm -f -- debian/vcftools.substvars rm -fr -- debian/.debhelper/generated/vcftools/ debian/vcftools/ debian/tmp/ dh_auto_install --destdir=debian/vcftools/ install -m0755 -d /build/reproducible-path/vcftools-0.1.17/debian/vcftools make -j12 install DESTDIR=/build/reproducible-path/vcftools-0.1.17/debian/vcftools AM_UPDATE_INFO_DIR=no make[1]: Entering directory '/build/reproducible-path/vcftools-0.1.17' Making install in src make[2]: Entering directory '/build/reproducible-path/vcftools-0.1.17/src' Making install in cpp make[3]: Entering directory '/build/reproducible-path/vcftools-0.1.17/src/cpp' make[4]: Entering directory '/build/reproducible-path/vcftools-0.1.17/src/cpp' /usr/bin/mkdir -p '/build/reproducible-path/vcftools-0.1.17/debian/vcftools/usr/bin' /usr/bin/mkdir -p '/build/reproducible-path/vcftools-0.1.17/debian/vcftools/usr/share/man/man1' /usr/bin/install -c vcftools '/build/reproducible-path/vcftools-0.1.17/debian/vcftools/usr/bin' /usr/bin/install -c -m 644 vcftools.1 '/build/reproducible-path/vcftools-0.1.17/debian/vcftools/usr/share/man/man1' make[4]: Leaving directory '/build/reproducible-path/vcftools-0.1.17/src/cpp' make[3]: Leaving directory '/build/reproducible-path/vcftools-0.1.17/src/cpp' Making install in perl make[3]: Entering directory '/build/reproducible-path/vcftools-0.1.17/src/perl' make[4]: Entering directory '/build/reproducible-path/vcftools-0.1.17/src/perl' /usr/bin/mkdir -p '/build/reproducible-path/vcftools-0.1.17/debian/vcftools/usr/bin' /usr/bin/mkdir -p '/build/reproducible-path/vcftools-0.1.17/debian/vcftools/usr//share/perl5' /usr/bin/install -c -m 644 FaSlice.pm Vcf.pm VcfStats.pm '/build/reproducible-path/vcftools-0.1.17/debian/vcftools/usr//share/perl5' /usr/bin/install -c fill-aa fill-an-ac fill-fs fill-ref-md5 vcf-annotate vcf-compare vcf-concat vcf-consensus vcf-contrast vcf-convert vcf-fix-newlines vcf-fix-ploidy vcf-indel-stats vcf-isec vcf-merge vcf-phased-join vcf-query vcf-shuffle-cols vcf-sort vcf-stats vcf-subset vcf-to-tab vcf-tstv vcf-validator '/build/reproducible-path/vcftools-0.1.17/debian/vcftools/usr/bin' make[4]: Leaving directory '/build/reproducible-path/vcftools-0.1.17/src/perl' make[3]: Leaving directory '/build/reproducible-path/vcftools-0.1.17/src/perl' make[3]: Entering directory '/build/reproducible-path/vcftools-0.1.17/src' make[4]: Entering directory '/build/reproducible-path/vcftools-0.1.17/src' make[4]: Nothing to be done for 'install-exec-am'. make[4]: Nothing to be done for 'install-data-am'. make[4]: Leaving directory '/build/reproducible-path/vcftools-0.1.17/src' make[3]: Leaving directory '/build/reproducible-path/vcftools-0.1.17/src' make[2]: Leaving directory '/build/reproducible-path/vcftools-0.1.17/src' make[2]: Entering directory '/build/reproducible-path/vcftools-0.1.17' make[3]: Entering directory '/build/reproducible-path/vcftools-0.1.17' make[3]: Nothing to be done for 'install-exec-am'. make[3]: Nothing to be done for 'install-data-am'. make[3]: Leaving directory '/build/reproducible-path/vcftools-0.1.17' make[2]: Leaving directory '/build/reproducible-path/vcftools-0.1.17' make[1]: Leaving directory '/build/reproducible-path/vcftools-0.1.17' rm -f debian/vcftools.debhelper.log debian/rules override_dh_install make[1]: Entering directory '/build/reproducible-path/vcftools-0.1.17' dh_install for perlscript in `grep -l '#!/usr/bin/env \+perl' debian/*/usr/bin/*` ; do \ sed -i '1s+#!/usr/bin/env perl+#!/usr/bin/perl+' ${perlscript} ; \ done make[1]: Leaving directory '/build/reproducible-path/vcftools-0.1.17' dh_installdocs install -m0755 -d debian/vcftools/usr/share/doc/vcftools install -m0755 -d debian/vcftools/usr/share/doc/vcftools cp --reflink=auto -a ./debian/README.test debian/vcftools/usr/share/doc/vcftools cp --reflink=auto -a ./debian/tests/run-unit-test debian/vcftools/usr/share/doc/vcftools chmod -R u\+rw,go=rX debian/vcftools/usr/share/doc install -p -m0644 debian/copyright debian/vcftools/usr/share/doc/vcftools/copyright rm -f debian/vcftools.debhelper.log debian/rules override_dh_installchangelogs make[1]: Entering directory '/build/reproducible-path/vcftools-0.1.17' dh_installchangelogs src/perl/ChangeLog install -m0755 -d debian/vcftools/usr/share/doc/vcftools install -p -m0644 debian/.debhelper/generated/vcftools/dh_installchangelogs.dch.trimmed debian/vcftools/usr/share/doc/vcftools/changelog.Debian install -p -m0644 src/perl/ChangeLog debian/vcftools/usr/share/doc/vcftools/changelog make[1]: Leaving directory '/build/reproducible-path/vcftools-0.1.17' rm -f debian/vcftools.debhelper.log debian/rules override_dh_installexamples make[1]: Entering directory '/build/reproducible-path/vcftools-0.1.17' dh_installexamples; mkdir -p /build/reproducible-path/vcftools-0.1.17/debian/vcftools/usr/share/doc/vcftools/examples/testsuite; mkdir -p /build/reproducible-path/vcftools-0.1.17/debian/vcftools/usr/share/doc/vcftools/examples/testdata; cp ./examples/* /build/reproducible-path/vcftools-0.1.17/debian/vcftools/usr/share/doc/vcftools/examples/testdata/; find ./src/perl/ \( -name "*.pm" -o -name "*fill*" -o -name "test.t" \) -exec cp \{\} /build/reproducible-path/vcftools-0.1.17/debian/vcftools/usr/share/doc/vcftools/examples/testsuite \; sed -i 's#examples#testdata#g' /build/reproducible-path/vcftools-0.1.17/debian/vcftools/usr/share/doc/vcftools/examples/testsuite/test.t; sed -i 's#I\.\./perl/#I\.\./\.#g' /build/reproducible-path/vcftools-0.1.17/debian/vcftools/usr/share/doc/vcftools/examples/testsuite/test.t; sed -i 's#\.\./perl/#/usr/bin/#g' /build/reproducible-path/vcftools-0.1.17/debian/vcftools/usr/share/doc/vcftools/examples/testsuite/test.t; for perlscript in `grep -lR '#!/usr/bin/env \+perl' debian/*/usr/share/doc/vcftools/examples` ; do \ sed -i '1s+#!/usr/bin/env perl+#!/usr/bin/perl+' ${perlscript} ; \ done make[1]: Leaving directory '/build/reproducible-path/vcftools-0.1.17' dh_installman install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./debian/mans/fill-aa.1 debian/vcftools/usr/share/man/man1/fill-aa.1 install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./debian/mans/fill-an-ac.1 debian/vcftools/usr/share/man/man1/fill-an-ac.1 install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./debian/mans/fill-fs.1 debian/vcftools/usr/share/man/man1/fill-fs.1 install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./debian/mans/fill-ref-md5.1 debian/vcftools/usr/share/man/man1/fill-ref-md5.1 install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./debian/mans/fill-rsIDs.1 debian/vcftools/usr/share/man/man1/fill-rsIDs.1 install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./debian/mans/vcf-annotate.1 debian/vcftools/usr/share/man/man1/vcf-annotate.1 install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./debian/mans/vcf-compare.1 debian/vcftools/usr/share/man/man1/vcf-compare.1 install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./debian/mans/vcf-concat.1 debian/vcftools/usr/share/man/man1/vcf-concat.1 install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./debian/mans/vcf-consensus.1 debian/vcftools/usr/share/man/man1/vcf-consensus.1 install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./debian/mans/vcf-contrast.1 debian/vcftools/usr/share/man/man1/vcf-contrast.1 install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./debian/mans/vcf-convert.1 debian/vcftools/usr/share/man/man1/vcf-convert.1 install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./debian/mans/vcf-fix-newlines.1 debian/vcftools/usr/share/man/man1/vcf-fix-newlines.1 install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./debian/mans/vcf-fix-ploidy.1 debian/vcftools/usr/share/man/man1/vcf-fix-ploidy.1 install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./debian/mans/vcf-indel-stats.1 debian/vcftools/usr/share/man/man1/vcf-indel-stats.1 install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./debian/mans/vcf-isec.1 debian/vcftools/usr/share/man/man1/vcf-isec.1 install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./debian/mans/vcf-merge.1 debian/vcftools/usr/share/man/man1/vcf-merge.1 install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./debian/mans/vcf-phased-join.1 debian/vcftools/usr/share/man/man1/vcf-phased-join.1 install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./debian/mans/vcf-query.1 debian/vcftools/usr/share/man/man1/vcf-query.1 install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./debian/mans/vcf-shuffle-cols.1 debian/vcftools/usr/share/man/man1/vcf-shuffle-cols.1 install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./debian/mans/vcf-sort.1 debian/vcftools/usr/share/man/man1/vcf-sort.1 install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./debian/mans/vcf-stats.1 debian/vcftools/usr/share/man/man1/vcf-stats.1 install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./debian/mans/vcf-subset.1 debian/vcftools/usr/share/man/man1/vcf-subset.1 install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./debian/mans/vcf-to-tab.1 debian/vcftools/usr/share/man/man1/vcf-to-tab.1 install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./debian/mans/vcf-tstv.1 debian/vcftools/usr/share/man/man1/vcf-tstv.1 install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./debian/mans/vcf-validator.1 debian/vcftools/usr/share/man/man1/vcf-validator.1 install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./src/cpp/vcftools.1 debian/vcftools/usr/share/man/man1/vcftools.1 man-recode --to-code UTF-8 --suffix .dh-new debian/vcftools/usr/share/man/man1/fill-ref-md5.1 debian/vcftools/usr/share/man/man1/fill-rsIDs.1 debian/vcftools/usr/share/man/man1/vcf-annotate.1 man-recode --to-code UTF-8 --suffix .dh-new debian/vcftools/usr/share/man/man1/fill-aa.1 debian/vcftools/usr/share/man/man1/fill-an-ac.1 debian/vcftools/usr/share/man/man1/fill-fs.1 man-recode --to-code UTF-8 --suffix .dh-new debian/vcftools/usr/share/man/man1/vcf-compare.1 debian/vcftools/usr/share/man/man1/vcf-concat.1 debian/vcftools/usr/share/man/man1/vcf-consensus.1 man-recode --to-code UTF-8 --suffix .dh-new debian/vcftools/usr/share/man/man1/vcf-merge.1 debian/vcftools/usr/share/man/man1/vcf-phased-join.1 debian/vcftools/usr/share/man/man1/vcf-query.1 man-recode --to-code UTF-8 --suffix .dh-new debian/vcftools/usr/share/man/man1/vcf-fix-ploidy.1 debian/vcftools/usr/share/man/man1/vcf-indel-stats.1 debian/vcftools/usr/share/man/man1/vcf-isec.1 man-recode --to-code UTF-8 --suffix .dh-new debian/vcftools/usr/share/man/man1/vcf-shuffle-cols.1 debian/vcftools/usr/share/man/man1/vcf-sort.1 debian/vcftools/usr/share/man/man1/vcf-stats.1 man-recode --to-code UTF-8 --suffix .dh-new debian/vcftools/usr/share/man/man1/vcf-subset.1 debian/vcftools/usr/share/man/man1/vcf-to-tab.1 debian/vcftools/usr/share/man/man1/vcf-tstv.1 man-recode --to-code UTF-8 --suffix .dh-new debian/vcftools/usr/share/man/man1/vcf-contrast.1 debian/vcftools/usr/share/man/man1/vcf-convert.1 debian/vcftools/usr/share/man/man1/vcf-fix-newlines.1 man-recode --to-code UTF-8 --suffix .dh-new debian/vcftools/usr/share/man/man1/vcf-validator.1 debian/vcftools/usr/share/man/man1/vcftools.1 mv debian/vcftools/usr/share/man/man1/vcf-contrast.1.dh-new debian/vcftools/usr/share/man/man1/vcf-contrast.1 mv debian/vcftools/usr/share/man/man1/vcf-convert.1.dh-new debian/vcftools/usr/share/man/man1/vcf-convert.1 mv debian/vcftools/usr/share/man/man1/vcf-fix-newlines.1.dh-new debian/vcftools/usr/share/man/man1/vcf-fix-newlines.1 chmod 0644 -- debian/vcftools/usr/share/man/man1/vcf-contrast.1 debian/vcftools/usr/share/man/man1/vcf-convert.1 debian/vcftools/usr/share/man/man1/vcf-fix-newlines.1 mv debian/vcftools/usr/share/man/man1/vcf-validator.1.dh-new debian/vcftools/usr/share/man/man1/vcf-validator.1 mv debian/vcftools/usr/share/man/man1/vcftools.1.dh-new debian/vcftools/usr/share/man/man1/vcftools.1 chmod 0644 -- debian/vcftools/usr/share/man/man1/vcf-validator.1 debian/vcftools/usr/share/man/man1/vcftools.1 mv debian/vcftools/usr/share/man/man1/vcf-subset.1.dh-new debian/vcftools/usr/share/man/man1/vcf-subset.1 mv debian/vcftools/usr/share/man/man1/vcf-to-tab.1.dh-new debian/vcftools/usr/share/man/man1/vcf-to-tab.1 mv debian/vcftools/usr/share/man/man1/vcf-tstv.1.dh-new debian/vcftools/usr/share/man/man1/vcf-tstv.1 chmod 0644 -- debian/vcftools/usr/share/man/man1/vcf-subset.1 debian/vcftools/usr/share/man/man1/vcf-to-tab.1 debian/vcftools/usr/share/man/man1/vcf-tstv.1 mv debian/vcftools/usr/share/man/man1/fill-aa.1.dh-new debian/vcftools/usr/share/man/man1/fill-aa.1 mv debian/vcftools/usr/share/man/man1/fill-an-ac.1.dh-new debian/vcftools/usr/share/man/man1/fill-an-ac.1 mv debian/vcftools/usr/share/man/man1/fill-fs.1.dh-new debian/vcftools/usr/share/man/man1/fill-fs.1 chmod 0644 -- debian/vcftools/usr/share/man/man1/fill-aa.1 debian/vcftools/usr/share/man/man1/fill-an-ac.1 debian/vcftools/usr/share/man/man1/fill-fs.1 mv debian/vcftools/usr/share/man/man1/vcf-fix-ploidy.1.dh-new debian/vcftools/usr/share/man/man1/vcf-fix-ploidy.1 mv debian/vcftools/usr/share/man/man1/vcf-indel-stats.1.dh-new debian/vcftools/usr/share/man/man1/vcf-indel-stats.1 mv debian/vcftools/usr/share/man/man1/vcf-isec.1.dh-new debian/vcftools/usr/share/man/man1/vcf-isec.1 chmod 0644 -- debian/vcftools/usr/share/man/man1/vcf-fix-ploidy.1 debian/vcftools/usr/share/man/man1/vcf-indel-stats.1 debian/vcftools/usr/share/man/man1/vcf-isec.1 mv debian/vcftools/usr/share/man/man1/vcf-shuffle-cols.1.dh-new debian/vcftools/usr/share/man/man1/vcf-shuffle-cols.1 mv debian/vcftools/usr/share/man/man1/vcf-sort.1.dh-new debian/vcftools/usr/share/man/man1/vcf-sort.1 mv debian/vcftools/usr/share/man/man1/vcf-stats.1.dh-new debian/vcftools/usr/share/man/man1/vcf-stats.1 chmod 0644 -- debian/vcftools/usr/share/man/man1/vcf-shuffle-cols.1 debian/vcftools/usr/share/man/man1/vcf-sort.1 debian/vcftools/usr/share/man/man1/vcf-stats.1 mv debian/vcftools/usr/share/man/man1/fill-ref-md5.1.dh-new debian/vcftools/usr/share/man/man1/fill-ref-md5.1 mv debian/vcftools/usr/share/man/man1/fill-rsIDs.1.dh-new debian/vcftools/usr/share/man/man1/fill-rsIDs.1 mv debian/vcftools/usr/share/man/man1/vcf-annotate.1.dh-new debian/vcftools/usr/share/man/man1/vcf-annotate.1 chmod 0644 -- debian/vcftools/usr/share/man/man1/fill-ref-md5.1 debian/vcftools/usr/share/man/man1/fill-rsIDs.1 debian/vcftools/usr/share/man/man1/vcf-annotate.1 mv debian/vcftools/usr/share/man/man1/vcf-compare.1.dh-new debian/vcftools/usr/share/man/man1/vcf-compare.1 mv debian/vcftools/usr/share/man/man1/vcf-concat.1.dh-new debian/vcftools/usr/share/man/man1/vcf-concat.1 mv debian/vcftools/usr/share/man/man1/vcf-consensus.1.dh-new debian/vcftools/usr/share/man/man1/vcf-consensus.1 chmod 0644 -- debian/vcftools/usr/share/man/man1/vcf-compare.1 debian/vcftools/usr/share/man/man1/vcf-concat.1 debian/vcftools/usr/share/man/man1/vcf-consensus.1 mv debian/vcftools/usr/share/man/man1/vcf-merge.1.dh-new debian/vcftools/usr/share/man/man1/vcf-merge.1 mv debian/vcftools/usr/share/man/man1/vcf-phased-join.1.dh-new debian/vcftools/usr/share/man/man1/vcf-phased-join.1 mv debian/vcftools/usr/share/man/man1/vcf-query.1.dh-new debian/vcftools/usr/share/man/man1/vcf-query.1 chmod 0644 -- debian/vcftools/usr/share/man/man1/vcf-merge.1 debian/vcftools/usr/share/man/man1/vcf-phased-join.1 debian/vcftools/usr/share/man/man1/vcf-query.1 dh_perl mv debian/vcftools.substvars.new debian/vcftools.substvars rmdir --ignore-fail-on-non-empty --parents debian/vcftools/usr/share/perl5 dh_link dh_strip_nondeterminism dh_compress cd debian/vcftools chmod a-x usr/share/doc/vcftools/changelog usr/share/doc/vcftools/changelog.Debian usr/share/man/man1/fill-aa.1 usr/share/man/man1/fill-an-ac.1 usr/share/man/man1/fill-fs.1 usr/share/man/man1/fill-ref-md5.1 usr/share/man/man1/fill-rsIDs.1 usr/share/man/man1/vcf-annotate.1 usr/share/man/man1/vcf-compare.1 usr/share/man/man1/vcf-concat.1 usr/share/man/man1/vcf-consensus.1 usr/share/man/man1/vcf-contrast.1 usr/share/man/man1/vcf-convert.1 usr/share/man/man1/vcf-fix-newlines.1 usr/share/man/man1/vcf-fix-ploidy.1 usr/share/man/man1/vcf-indel-stats.1 usr/share/man/man1/vcf-isec.1 usr/share/man/man1/vcf-merge.1 usr/share/man/man1/vcf-phased-join.1 usr/share/man/man1/vcf-query.1 usr/share/man/man1/vcf-shuffle-cols.1 usr/share/man/man1/vcf-sort.1 usr/share/man/man1/vcf-stats.1 usr/share/man/man1/vcf-subset.1 usr/share/man/man1/vcf-to-tab.1 usr/share/man/man1/vcf-tstv.1 usr/share/man/man1/vcf-validator.1 usr/share/man/man1/vcftools.1 gzip -9nf usr/share/doc/vcftools/changelog usr/share/doc/vcftools/changelog.Debian usr/share/man/man1/fill-aa.1 usr/share/man/man1/fill-an-ac.1 usr/share/man/man1/fill-fs.1 usr/share/man/man1/fill-ref-md5.1 usr/share/man/man1/fill-rsIDs.1 usr/share/man/man1/vcf-annotate.1 usr/share/man/man1/vcf-compare.1 usr/share/man/man1/vcf-concat.1 usr/share/man/man1/vcf-consensus.1 usr/share/man/man1/vcf-contrast.1 usr/share/man/man1/vcf-convert.1 usr/share/man/man1/vcf-fix-newlines.1 usr/share/man/man1/vcf-fix-ploidy.1 usr/share/man/man1/vcf-indel-stats.1 usr/share/man/man1/vcf-isec.1 usr/share/man/man1/vcf-merge.1 usr/share/man/man1/vcf-phased-join.1 usr/share/man/man1/vcf-query.1 usr/share/man/man1/vcf-shuffle-cols.1 usr/share/man/man1/vcf-sort.1 usr/share/man/man1/vcf-stats.1 usr/share/man/man1/vcf-subset.1 usr/share/man/man1/vcf-to-tab.1 usr/share/man/man1/vcf-tstv.1 usr/share/man/man1/vcf-validator.1 usr/share/man/man1/vcftools.1 cd '/build/reproducible-path/vcftools-0.1.17' dh_fixperms find debian/vcftools ! -type l -a -true -a -true -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s find debian/vcftools/usr/share/doc -type f -a -true -a ! -regex 'debian/vcftools/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644 find debian/vcftools/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 find debian/vcftools/usr/share/man -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/vcftools/usr/share/perl5 -type f -perm -5 -name '*.pm' -a -true -a -true -print0 2>/dev/null | xargs -0r chmod a-X find debian/vcftools -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/vcftools/usr/bin -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod a+x dh_missing dh_dwz -a dwz -- debian/vcftools/usr/bin/vcftools dh_strip -a install -m0755 -d debian/.debhelper/vcftools/dbgsym-root/usr/lib/debug/.build-id/86 objcopy --only-keep-debug --compress-debug-sections debian/vcftools/usr/bin/vcftools debian/.debhelper/vcftools/dbgsym-root/usr/lib/debug/.build-id/86/17d71233c83b12875e1f5abd8648822d77215c.debug chmod 0644 -- debian/.debhelper/vcftools/dbgsym-root/usr/lib/debug/.build-id/86/17d71233c83b12875e1f5abd8648822d77215c.debug strip --remove-section=.comment --remove-section=.note debian/vcftools/usr/bin/vcftools objcopy --add-gnu-debuglink debian/.debhelper/vcftools/dbgsym-root/usr/lib/debug/.build-id/86/17d71233c83b12875e1f5abd8648822d77215c.debug debian/vcftools/usr/bin/vcftools install -m0755 -d debian/.debhelper/vcftools/dbgsym-root/usr/share/doc ln -s vcftools debian/.debhelper/vcftools/dbgsym-root/usr/share/doc/vcftools-dbgsym install -m0755 -d debian/.debhelper/vcftools dh_makeshlibs -a rm -f debian/vcftools/DEBIAN/shlibs dh_shlibdeps -a install -m0755 -d debian/vcftools/DEBIAN dpkg-shlibdeps -Tdebian/vcftools.substvars debian/vcftools/usr/bin/vcftools dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 from: /lib/ld-linux-aarch64.so.1 dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 to: /lib/ld-linux-aarch64.so.1.usr-is-merged dh_installdeb install -m0755 -d debian/vcftools/DEBIAN dh_gencontrol install -m0755 -d debian/vcftools/DEBIAN echo misc:Depends= >> debian/vcftools.substvars echo misc:Pre-Depends= >> debian/vcftools.substvars install -m0755 -d debian/.debhelper/vcftools/dbgsym-root/DEBIAN dpkg-gencontrol -pvcftools -ldebian/changelog -Tdebian/vcftools.substvars -cdebian/control -Pdebian/.debhelper/vcftools/dbgsym-root -UPre-Depends -URecommends -USuggests -UEnhances -UProvides -UEssential -UConflicts -DPriority=optional -UHomepage -UImportant -DAuto-Built-Package=debug-symbols -UProtected -UBuilt-Using -UStatic-Built-Using -DPackage=vcftools-dbgsym -DDepends="vcftools (= \${binary:Version})" -DDescription="debug symbols for vcftools" -DBuild-Ids=8617d71233c83b12875e1f5abd8648822d77215c -DSection=debug -UMulti-Arch -UReplaces -UBreaks chmod 0644 -- debian/.debhelper/vcftools/dbgsym-root/DEBIAN/control dpkg-gencontrol -pvcftools -ldebian/changelog -Tdebian/vcftools.substvars -cdebian/control -Pdebian/vcftools chmod 0644 -- debian/vcftools/DEBIAN/control dh_md5sums install -m0755 -d debian/vcftools/DEBIAN cd debian/vcftools >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums chmod 0644 -- debian/vcftools/DEBIAN/md5sums install -m0755 -d debian/.debhelper/vcftools/dbgsym-root/DEBIAN cd debian/.debhelper/vcftools/dbgsym-root >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums chmod 0644 -- debian/.debhelper/vcftools/dbgsym-root/DEBIAN/md5sums dh_builddeb dpkg-deb --root-owner-group --build debian/.debhelper/vcftools/dbgsym-root .. dpkg-deb --root-owner-group --build debian/vcftools .. dpkg-deb: building package 'vcftools-dbgsym' in '../vcftools-dbgsym_0.1.17-1_arm64.deb'. dpkg-deb: building package 'vcftools' in '../vcftools_0.1.17-1_arm64.deb'. dpkg-genbuildinfo --build=binary -O../vcftools_0.1.17-1_arm64.buildinfo dpkg-genchanges --build=binary -O../vcftools_0.1.17-1_arm64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: including full source code in upload I: copying local configuration 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/3574780 and its subdirectories I: Current time: Thu Oct 30 10:45:46 -12 2025 I: pbuilder-time-stamp: 1761864346 Thu Oct 30 22:45:46 UTC 2025 I: Signing ./b1/vcftools_0.1.17-1_arm64.buildinfo as vcftools_0.1.17-1_arm64.buildinfo.asc Thu Oct 30 22:45:46 UTC 2025 I: Signed ./b1/vcftools_0.1.17-1_arm64.buildinfo as ./b1/vcftools_0.1.17-1_arm64.buildinfo.asc Thu Oct 30 22:45:46 UTC 2025 - build #1 for vcftools/forky/arm64 on codethink03-arm64 done. Starting cleanup. All cleanup done. Thu Oct 30 22:45:46 UTC 2025 - reproducible_build.sh stopped running as /tmp/jenkins-script-DpZfGEsu, removing. /srv/reproducible-results/rbuild-debian/r-b-build.7IOTWDbZ: total 16 drwxrwxr-x 2 jenkins jenkins 4096 Oct 30 22:45 b1 drwxrwxr-x 2 jenkins jenkins 4096 Oct 30 22:44 b2 -rw------- 1 jenkins jenkins 3159 Oct 30 22:44 rbuildlog.EANOn1A -rw-rw-r-- 1 jenkins jenkins 2043 Aug 22 06:31 vcftools_0.1.17-1.dsc /srv/reproducible-results/rbuild-debian/r-b-build.7IOTWDbZ/b1: total 6240 -rw-r--r-- 1 jenkins jenkins 331613 Oct 30 22:45 build.log -rw-r--r-- 1 jenkins jenkins 5320980 Oct 30 22:45 vcftools-dbgsym_0.1.17-1_arm64.deb -rw-r--r-- 1 jenkins jenkins 13976 Oct 30 22:45 vcftools_0.1.17-1.debian.tar.xz -rw-r--r-- 1 jenkins jenkins 2043 Oct 30 22:45 vcftools_0.1.17-1.dsc -rw-r--r-- 1 jenkins jenkins 4874 Oct 30 22:45 vcftools_0.1.17-1_arm64.buildinfo -rw-rw-r-- 1 jenkins jenkins 5756 Oct 30 22:45 vcftools_0.1.17-1_arm64.buildinfo.asc -rw-r--r-- 1 jenkins jenkins 1509 Oct 30 22:45 vcftools_0.1.17-1_arm64.changes -rw-r--r-- 1 jenkins jenkins 413128 Oct 30 22:45 vcftools_0.1.17-1_arm64.deb -rw-r--r-- 1 jenkins jenkins 1634 Oct 30 22:45 vcftools_0.1.17-1_source.changes -rw-r--r-- 1 jenkins jenkins 247685 Oct 30 22:45 vcftools_0.1.17.orig.tar.gz /srv/reproducible-results/rbuild-debian/r-b-build.7IOTWDbZ/b2: total 0 Thu Oct 30 22:45:48 UTC 2025 I: Deleting $TMPDIR on codethink03-arm64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Thu Oct 30 10:44:37 -12 2025 I: pbuilder-time-stamp: 1761864277 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/forky-reproducible-base.tgz] tar: ./build: time stamp 2026-11-30 05:47:35 is 34196577.15942707 s in the future tar: ./dev/ptmx: time stamp 2026-11-30 05:47:21 is 34196563.15879655 s in the future tar: ./dev/pts: time stamp 2026-11-30 05:47:21 is 34196563.15878131 s in the future tar: ./dev/console: time stamp 2026-11-30 05:47:21 is 34196563.15877279 s in the future tar: ./dev/tty: time stamp 2026-11-30 05:47:21 is 34196563.15876447 s in the future tar: ./dev/urandom: time stamp 2026-11-30 05:47:21 is 34196563.15875503 s in the future tar: ./dev/random: time stamp 2026-11-30 05:47:21 is 34196563.15874643 s in the future tar: ./dev/full: time stamp 2026-11-30 05:47:21 is 34196563.15873743 s in the future tar: ./dev/zero: time stamp 2026-11-30 05:47:21 is 34196563.15872911 s in the future tar: ./dev/null: time stamp 2026-11-30 05:47:21 is 34196563.15872079 s in the future tar: ./etc/group: time stamp 2026-11-30 05:47:39 is 34196581.15859363 s in the future tar: ./etc/group-: time stamp 2026-11-30 05:47:21 is 34196563.15858119 s in the future tar: ./etc/gshadow: time stamp 2026-11-30 05:47:39 is 34196581.15854543 s in the future tar: ./etc/passwd: time stamp 2026-11-30 05:47:39 is 34196581.15852051 s in the future tar: ./etc/passwd-: time stamp 2026-11-30 05:47:21 is 34196563.15850243 s in the future tar: ./etc/shadow: time stamp 2026-11-30 05:47:39 is 34196581.15848247 s in the future tar: ./etc/.pwd.lock: time stamp 2026-11-30 05:47:39 is 34196581.15846763 s in the future tar: ./etc/selinux: time stamp 2026-11-30 05:47:38 is 34196580.15844467 s in the future tar: ./etc/perl/Net: time stamp 2026-11-30 05:47:35 is 34196577.15839655 s in the future tar: ./etc/perl: time stamp 2026-11-30 05:47:34 is 34196576.15839127 s in the future tar: ./etc/kernel: time stamp 2026-11-30 05:47:26 is 34196568.15837195 s in the future tar: ./etc/environment: time stamp 2026-11-30 05:47:26 is 34196568.15836047 s in the future tar: ./etc/shells: time stamp 2026-11-30 05:47:25 is 34196567.15833815 s in the future tar: ./etc/opt: time stamp 2026-11-30 05:47:21 is 34196563.15832847 s in the future tar: ./etc/subgid: time stamp 2026-11-30 05:47:21 is 34196563.15829819 s in the future tar: ./etc/subuid: time stamp 2026-11-30 05:47:21 is 34196563.15828903 s in the future tar: ./etc/fstab: time stamp 2026-11-30 05:47:21 is 34196563.15827711 s in the future tar: ./etc/terminfo: time stamp 2026-11-30 05:47:25 is 34196567.15825871 s in the future tar: ./etc/pam.d/common-session-noninteractive: time stamp 2026-11-30 05:47:26 is 34196568.15810423 s in the future tar: ./etc/pam.d/common-session: time stamp 2026-11-30 05:47:26 is 34196568.15771895 s in the future tar: ./etc/pam.d/common-password: time stamp 2026-11-30 05:47:26 is 34196568.15769855 s 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./usr/share/locale/zh_CN/LC_TIME: time stamp 2026-11-30 05:47:22 is 34196558.37459419 s in the future tar: ./usr/share/locale/zh_CN: time stamp 2026-11-30 05:47:19 is 34196555.37458815 s in the future tar: ./usr/share/locale/zh_TW/LC_TIME: time stamp 2026-11-30 05:47:22 is 34196558.37458059 s in the future tar: ./usr/share/locale/zh_TW: time stamp 2026-11-30 05:47:19 is 34196555.37457419 s in the future tar: ./usr/share/locale/be/LC_TIME: time stamp 2026-11-30 05:47:22 is 34196558.37456667 s in the future tar: ./usr/share/locale/eu/LC_TIME: time stamp 2026-11-30 05:47:22 is 34196558.37455583 s in the future tar: ./usr/share/locale/ia/LC_TIME: time stamp 2026-11-30 05:47:22 is 34196558.37454475 s in the future tar: ./usr/share/locale/kk/LC_TIME: time stamp 2026-11-30 05:47:22 is 34196558.37453331 s in the future tar: ./usr/share/locale/lg/LC_TIME: time stamp 2026-11-30 05:47:22 is 34196558.37452227 s in the future tar: ./usr/share/locale/ms/LC_TIME: time stamp 2026-11-30 05:47:22 is 34196558.37451099 s in the future tar: ./usr/share/locale/ta/LC_TIME: time stamp 2026-11-30 05:47:22 is 34196558.37450027 s in the future tar: ./usr/share/locale: time stamp 2026-11-30 05:47:39 is 34196575.37449007 s in the future tar: ./usr/share/aptitude: time stamp 2026-11-30 05:47:39 is 34196575.37448283 s in the future tar: ./usr/share: time stamp 2026-11-30 05:47:39 is 34196575.37447719 s in the future tar: ./usr: time stamp 2026-11-30 05:47:21 is 34196557.37447191 s in the future tar: ./etc/alternatives: time stamp 2026-11-30 05:47:40 is 34196576.37446011 s in the future tar: ./etc/systemd/system/timers.target.wants: time stamp 2026-11-30 05:47:35 is 34196571.37445283 s in the future tar: ./etc/systemd/system: time stamp 2026-11-30 05:47:21 is 34196557.37444691 s in the future I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [vcftools_0.1.17-1.dsc] I: copying [./vcftools_0.1.17.orig.tar.gz] I: copying [./vcftools_0.1.17-1.debian.tar.xz] I: Extracting source dpkg-source: warning: cannot verify inline signature for ./vcftools_0.1.17-1.dsc: no acceptable signature found dpkg-source: info: extracting vcftools in vcftools-0.1.17 dpkg-source: info: unpacking vcftools_0.1.17.orig.tar.gz dpkg-source: info: unpacking vcftools_0.1.17-1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying temporary_test_fix.patch dpkg-source: info: applying spelling.patch dpkg-source: info: applying manpage.patch dpkg-source: info: applying 0001-vcf-fix-ploidy-make-p-work-without-.-on-INC.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/3574780/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='arm64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 ' DISTRIBUTION='forky' HOME='/root' HOST_ARCH='arm64' IFS=' ' INVOCATION_ID='1f1da193a55c414991b2ac5448a6e0ad' 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='3574780' PS1='# ' PS2='> ' 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.7IOTWDbZ/pbuilderrc_CFQQ --distribution forky --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/forky-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.7IOTWDbZ/b1 --logfile b1/build.log vcftools_0.1.17-1.dsc' SUDO_GID='109' SUDO_HOME='/var/lib/jenkins' SUDO_UID='104' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://192.168.101.4:3128' I: uname -a Linux codethink03-arm64 6.12.48+deb13-cloud-arm64 #1 SMP Debian 6.12.48-1 (2025-09-20) aarch64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Aug 10 12:30 /bin -> usr/bin I: user script /srv/workspace/pbuilder/3574780/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: arm64 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13), pkgconf, zlib1g-dev dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19971 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on pkgconf; however: Package pkgconf is not installed. pbuilder-satisfydepends-dummy depends on zlib1g-dev; however: Package zlib1g-dev is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libdebhelper-perl{a} libelf1t64{a} libfile-stripnondeterminism-perl{a} libmagic-mgc{a} libmagic1t64{a} libpipeline1{a} libpkgconf3{a} libtool{a} libuchardet0{a} libunistring5{a} libxml2-16{a} m4{a} man-db{a} pkgconf{a} pkgconf-bin{a} po-debconf{a} sensible-utils{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: curl libarchive-cpio-perl libltdl-dev libmail-sendmail-perl lynx wget 0 packages upgraded, 33 newly installed, 0 to remove and 0 not upgraded. Need to get 12.0 MB of archives. After unpacking 46.6 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian forky/main arm64 sensible-utils all 0.0.26 [27.0 kB] Get: 2 http://deb.debian.org/debian forky/main arm64 libmagic-mgc arm64 1:5.46-5 [338 kB] Get: 3 http://deb.debian.org/debian forky/main arm64 libmagic1t64 arm64 1:5.46-5 [103 kB] Get: 4 http://deb.debian.org/debian forky/main arm64 file arm64 1:5.46-5 [43.7 kB] Get: 5 http://deb.debian.org/debian forky/main arm64 gettext-base arm64 0.23.1-2+b1 [241 kB] Get: 6 http://deb.debian.org/debian forky/main arm64 libuchardet0 arm64 0.0.8-2 [69.0 kB] Get: 7 http://deb.debian.org/debian forky/main arm64 groff-base arm64 1.23.0-9 [1130 kB] Get: 8 http://deb.debian.org/debian forky/main arm64 bsdextrautils arm64 2.41.2-4 [97.3 kB] Get: 9 http://deb.debian.org/debian forky/main arm64 libpipeline1 arm64 1.5.8-1 [40.2 kB] Get: 10 http://deb.debian.org/debian forky/main arm64 man-db arm64 2.13.1-1 [1453 kB] Get: 11 http://deb.debian.org/debian forky/main arm64 m4 arm64 1.4.20-2 [315 kB] Get: 12 http://deb.debian.org/debian forky/main arm64 autoconf all 2.72-3.1 [494 kB] Get: 13 http://deb.debian.org/debian forky/main arm64 autotools-dev all 20240727.1 [60.2 kB] Get: 14 http://deb.debian.org/debian forky/main arm64 automake all 1:1.18.1-2 [877 kB] Get: 15 http://deb.debian.org/debian forky/main arm64 autopoint all 0.23.1-2 [770 kB] Get: 16 http://deb.debian.org/debian forky/main arm64 libdebhelper-perl all 13.28 [92.4 kB] Get: 17 http://deb.debian.org/debian forky/main arm64 libtool all 2.5.4-7 [540 kB] Get: 18 http://deb.debian.org/debian forky/main arm64 dh-autoreconf all 21 [12.2 kB] Get: 19 http://deb.debian.org/debian forky/main arm64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 20 http://deb.debian.org/debian forky/main arm64 libfile-stripnondeterminism-perl all 1.15.0-1 [19.9 kB] Get: 21 http://deb.debian.org/debian forky/main arm64 dh-strip-nondeterminism all 1.15.0-1 [8812 B] Get: 22 http://deb.debian.org/debian forky/main arm64 libelf1t64 arm64 0.193-3 [189 kB] Get: 23 http://deb.debian.org/debian forky/main arm64 dwz arm64 0.16-2 [100 kB] Get: 24 http://deb.debian.org/debian forky/main arm64 libunistring5 arm64 1.3-2 [453 kB] Get: 25 http://deb.debian.org/debian forky/main arm64 libxml2-16 arm64 2.14.6+dfsg-0.1 [601 kB] Get: 26 http://deb.debian.org/debian forky/main arm64 gettext arm64 0.23.1-2+b1 [1612 kB] Get: 27 http://deb.debian.org/debian forky/main arm64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 28 http://deb.debian.org/debian forky/main arm64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 29 http://deb.debian.org/debian forky/main arm64 debhelper all 13.28 [941 kB] Get: 30 http://deb.debian.org/debian forky/main arm64 libpkgconf3 arm64 1.8.1-4 [35.3 kB] Get: 31 http://deb.debian.org/debian forky/main arm64 pkgconf-bin arm64 1.8.1-4 [29.6 kB] Get: 32 http://deb.debian.org/debian forky/main arm64 pkgconf arm64 1.8.1-4 [26.1 kB] Get: 33 http://deb.debian.org/debian forky/main arm64 zlib1g-dev arm64 1:1.3.dfsg+really1.3.1-1+b1 [917 kB] Fetched 12.0 MB in 0s (77.9 MB/s) Preconfiguring packages ... Selecting previously unselected package sensible-utils. (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 ... 19971 files and directories currently installed.) Preparing to unpack .../00-sensible-utils_0.0.26_all.deb ... Unpacking sensible-utils (0.0.26) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../01-libmagic-mgc_1%3a5.46-5_arm64.deb ... Unpacking libmagic-mgc (1:5.46-5) ... Selecting previously unselected package libmagic1t64:arm64. Preparing to unpack .../02-libmagic1t64_1%3a5.46-5_arm64.deb ... Unpacking libmagic1t64:arm64 (1:5.46-5) ... Selecting previously unselected package file. Preparing to unpack .../03-file_1%3a5.46-5_arm64.deb ... Unpacking file (1:5.46-5) ... Selecting previously unselected package gettext-base. Preparing to unpack .../04-gettext-base_0.23.1-2+b1_arm64.deb ... Unpacking gettext-base (0.23.1-2+b1) ... Selecting previously unselected package libuchardet0:arm64. Preparing to unpack .../05-libuchardet0_0.0.8-2_arm64.deb ... Unpacking libuchardet0:arm64 (0.0.8-2) ... Selecting previously unselected package groff-base. Preparing to unpack .../06-groff-base_1.23.0-9_arm64.deb ... Unpacking groff-base (1.23.0-9) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../07-bsdextrautils_2.41.2-4_arm64.deb ... Unpacking bsdextrautils (2.41.2-4) ... Selecting previously unselected package libpipeline1:arm64. Preparing to unpack .../08-libpipeline1_1.5.8-1_arm64.deb ... Unpacking libpipeline1:arm64 (1.5.8-1) ... Selecting previously unselected package man-db. Preparing to unpack .../09-man-db_2.13.1-1_arm64.deb ... Unpacking man-db (2.13.1-1) ... Selecting previously unselected package m4. Preparing to unpack .../10-m4_1.4.20-2_arm64.deb ... Unpacking m4 (1.4.20-2) ... Selecting previously unselected package autoconf. Preparing to unpack .../11-autoconf_2.72-3.1_all.deb ... Unpacking autoconf (2.72-3.1) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../12-autotools-dev_20240727.1_all.deb ... Unpacking autotools-dev (20240727.1) ... Selecting previously unselected package automake. Preparing to unpack .../13-automake_1%3a1.18.1-2_all.deb ... Unpacking automake (1:1.18.1-2) ... Selecting previously unselected package autopoint. Preparing to unpack .../14-autopoint_0.23.1-2_all.deb ... Unpacking autopoint (0.23.1-2) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../15-libdebhelper-perl_13.28_all.deb ... Unpacking libdebhelper-perl (13.28) ... Selecting previously unselected package libtool. Preparing to unpack .../16-libtool_2.5.4-7_all.deb ... Unpacking libtool (2.5.4-7) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../17-dh-autoreconf_21_all.deb ... Unpacking dh-autoreconf (21) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../18-libarchive-zip-perl_1.68-1_all.deb ... Unpacking libarchive-zip-perl (1.68-1) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../19-libfile-stripnondeterminism-perl_1.15.0-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.15.0-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../20-dh-strip-nondeterminism_1.15.0-1_all.deb ... Unpacking dh-strip-nondeterminism (1.15.0-1) ... Selecting previously unselected package libelf1t64:arm64. Preparing to unpack .../21-libelf1t64_0.193-3_arm64.deb ... Unpacking libelf1t64:arm64 (0.193-3) ... Selecting previously unselected package dwz. Preparing to unpack .../22-dwz_0.16-2_arm64.deb ... Unpacking dwz (0.16-2) ... Selecting previously unselected package libunistring5:arm64. Preparing to unpack .../23-libunistring5_1.3-2_arm64.deb ... Unpacking libunistring5:arm64 (1.3-2) ... Selecting previously unselected package libxml2-16:arm64. Preparing to unpack .../24-libxml2-16_2.14.6+dfsg-0.1_arm64.deb ... Unpacking libxml2-16:arm64 (2.14.6+dfsg-0.1) ... Selecting previously unselected package gettext. Preparing to unpack .../25-gettext_0.23.1-2+b1_arm64.deb ... Unpacking gettext (0.23.1-2+b1) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../26-intltool-debian_0.35.0+20060710.6_all.deb ... Unpacking intltool-debian (0.35.0+20060710.6) ... Selecting previously unselected package po-debconf. Preparing to unpack .../27-po-debconf_1.0.21+nmu1_all.deb ... Unpacking po-debconf (1.0.21+nmu1) ... Selecting previously unselected package debhelper. Preparing to unpack .../28-debhelper_13.28_all.deb ... Unpacking debhelper (13.28) ... Selecting previously unselected package libpkgconf3:arm64. Preparing to unpack .../29-libpkgconf3_1.8.1-4_arm64.deb ... Unpacking libpkgconf3:arm64 (1.8.1-4) ... Selecting previously unselected package pkgconf-bin. Preparing to unpack .../30-pkgconf-bin_1.8.1-4_arm64.deb ... Unpacking pkgconf-bin (1.8.1-4) ... Selecting previously unselected package pkgconf:arm64. Preparing to unpack .../31-pkgconf_1.8.1-4_arm64.deb ... Unpacking pkgconf:arm64 (1.8.1-4) ... Selecting previously unselected package zlib1g-dev:arm64. Preparing to unpack .../32-zlib1g-dev_1%3a1.3.dfsg+really1.3.1-1+b1_arm64.deb ... Unpacking zlib1g-dev:arm64 (1:1.3.dfsg+really1.3.1-1+b1) ... Setting up libpipeline1:arm64 (1.5.8-1) ... Setting up bsdextrautils (2.41.2-4) ... Setting up libmagic-mgc (1:5.46-5) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libxml2-16:arm64 (2.14.6+dfsg-0.1) ... Setting up libdebhelper-perl (13.28) ... Setting up libmagic1t64:arm64 (1:5.46-5) ... Setting up gettext-base (0.23.1-2+b1) ... Setting up m4 (1.4.20-2) ... Setting up file (1:5.46-5) ... Setting up libelf1t64:arm64 (0.193-3) ... Setting up autotools-dev (20240727.1) ... Setting up libpkgconf3:arm64 (1.8.1-4) ... Setting up libunistring5:arm64 (1.3-2) ... Setting up autopoint (0.23.1-2) ... Setting up pkgconf-bin (1.8.1-4) ... Setting up autoconf (2.72-3.1) ... Setting up zlib1g-dev:arm64 (1:1.3.dfsg+really1.3.1-1+b1) ... Setting up dwz (0.16-2) ... Setting up sensible-utils (0.0.26) ... Setting up libuchardet0:arm64 (0.0.8-2) ... Setting up automake (1:1.18.1-2) ... update-alternatives: using /usr/bin/automake-1.18 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.15.0-1) ... Setting up gettext (0.23.1-2+b1) ... Setting up libtool (2.5.4-7) ... Setting up pkgconf:arm64 (1.8.1-4) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (21) ... Setting up dh-strip-nondeterminism (1.15.0-1) ... Setting up groff-base (1.23.0-9) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up man-db (2.13.1-1) ... Not building database; man-db/auto-update is not 'true'. Setting up debhelper (13.28) ... Processing triggers for libc-bin (2.41-12) ... Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package I: Running cd /build/reproducible-path/vcftools-0.1.17/ && 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 > ../vcftools_0.1.17-1_source.changes dpkg-buildpackage: info: source package vcftools dpkg-buildpackage: info: source version 0.1.17-1 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Dylan Aïssi dpkg-source --before-build . dpkg-buildpackage: info: host architecture arm64 debian/rules clean dh clean dh_clean rm -f debian/debhelper-build-stamp rm -rf debian/.debhelper/ rm -f -- debian/vcftools.substvars debian/files rm -fr -- debian/vcftools/ debian/tmp/ find . \( \( \ \( -path .\*/.git -o -path .\*/.svn -o -path .\*/.bzr -o -path .\*/.hg -o -path .\*/CVS -o -path .\*/.pc -o -path .\*/_darcs \) -prune -o -type f -a \ \( -name '#*#' -o -name '.*~' -o -name '*~' -o -name DEADJOE \ -o -name '*.orig' -o -name '*.rej' -o -name '*.bak' \ -o -name '.*.orig' -o -name .*.rej -o -name '.SUMS' \ -o -name TAGS -o \( -path '*/.deps/*' -a -name '*.P' \) \ \) -exec rm -f {} + \) -o \ \( -type d -a \( -name autom4te.cache -o -name __pycache__ \) -prune -exec rm -rf {} + \) \) debian/rules binary dh binary dh_update_autotools_config dh_autoreconf find ! -ipath "./debian/*" -a ! \( -path '*/.git/*' -o -path '*/.hg/*' -o -path '*/.bzr/*' -o -path '*/.svn/*' -o -path '*/CVS/*' \) -a -type f -exec md5sum {} + -o -type l -printf "symlink %p " > debian/autoreconf.before grep -q ^XDT_ configure.ac autoreconf -f -i configure.ac:16: installing './compile' configure.ac:12: installing './install-sh' configure.ac:12: installing './missing' src/cpp/Makefile.am: installing './depcomp' find ! -ipath "./debian/*" -a ! \( -path '*/.git/*' -o -path '*/.hg/*' -o -path '*/.bzr/*' -o -path '*/.svn/*' -o -path '*/CVS/*' \) -a -type f -exec md5sum {} + -o -type l -printf "symlink %p " > debian/autoreconf.after debian/rules override_dh_auto_configure make[1]: Entering directory '/build/reproducible-path/vcftools-0.1.17' dh_auto_configure -- --with-pmdir=/share/perl5 ./configure --build=aarch64-linux-gnu --prefix=/usr --includedir=\${prefix}/include --mandir=\${prefix}/share/man --infodir=\${prefix}/share/info --sysconfdir=/etc --localstatedir=/var --disable-option-checking --disable-silent-rules --libdir=\${prefix}/lib/aarch64-linux-gnu --runstatedir=/run --disable-maintainer-mode --disable-dependency-tracking --with-pmdir=/share/perl5 checking for a BSD-compatible install... /usr/bin/install -c checking whether sleep supports fractional seconds... yes checking filesystem timestamp resolution... 0.01 checking whether build environment is sane... yes checking for a race-free mkdir -p... /usr/bin/mkdir -p checking for gawk... no checking for mawk... mawk checking whether make sets $(MAKE)... yes checking whether make supports nested variables... yes checking xargs -n works... yes checking whether UID '1111' is supported by ustar format... yes checking whether GID '1111' is supported by ustar format... yes checking how to create a ustar tar archive... gnutar checking for g++... g++ checking whether the C++ compiler works... yes checking for C++ compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether the compiler supports GNU C++... yes checking whether g++ accepts -g... yes checking for g++ option to enable C++11 features... none needed checking whether make supports the include directive... yes (GNU style) checking dependency style of g++... none checking for gcc... gcc checking whether the compiler supports GNU C... yes checking whether gcc accepts -g... yes checking for gcc option to enable C11 features... none needed checking whether gcc understands -c and -o together... yes checking dependency style of gcc... none checking how to run the C preprocessor... gcc -E checking for perl... /usr/bin/perl checking for pkg-config... /usr/bin/pkg-config checking pkg-config is at least version 0.9.0... yes checking for zlib... yes checking for stdio.h... yes checking for stdlib.h... yes checking for string.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for strings.h... yes checking for sys/stat.h... yes checking for sys/types.h... yes checking for unistd.h... yes checking for arpa/inet.h... yes checking for fcntl.h... yes checking for limits.h... yes checking for netdb.h... yes checking for stdint.h... (cached) yes checking for stdlib.h... (cached) yes checking for string.h... (cached) yes checking for sys/socket.h... yes checking for unistd.h... (cached) yes checking for _Bool... yes checking for stdbool.h that conforms to C99 or later... yes checking for inline... inline checking for int16_t... yes checking for int32_t... yes checking for int64_t... yes checking for int8_t... yes checking for off_t... yes checking for size_t... yes checking for ssize_t... yes checking for uint16_t... yes checking for uint32_t... yes checking for uint8_t... yes checking for -Wdate-time -D_FORTIFY_SOURCE=2 option for large files... none needed checking for error_at_line... yes checking for gethostbyaddr... yes checking for gethostbyname... yes checking for malloc... yes checking for memset... yes checking for pow... no checking for realloc... yes checking for select... yes checking for socket... yes checking for sqrt... no checking for strchr... yes checking for strdup... yes checking for strerror... yes checking for strstr... yes checking for strtol... yes checking that generated files are newer than configure... done configure: creating ./config.status config.status: creating Makefile config.status: creating src/Makefile config.status: creating src/cpp/Makefile config.status: creating src/perl/Makefile config.status: creating config.h config.status: executing depfiles commands make[1]: Leaving directory '/build/reproducible-path/vcftools-0.1.17' dh_auto_build make -j12 make[1]: Entering directory '/build/reproducible-path/vcftools-0.1.17' make all-recursive make[2]: Entering directory '/build/reproducible-path/vcftools-0.1.17' Making all in src make[3]: Entering directory '/build/reproducible-path/vcftools-0.1.17/src' Making all in cpp make[4]: Entering directory '/build/reproducible-path/vcftools-0.1.17/src/cpp' g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-bcf_entry.o `test -f 'bcf_entry.cpp' || echo './'`bcf_entry.cpp g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-bcf_entry_setters.o `test -f 'bcf_entry_setters.cpp' || echo './'`bcf_entry_setters.cpp g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-bcf_file.o `test -f 'bcf_file.cpp' || echo './'`bcf_file.cpp gcc -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-bgzf.o `test -f 'bgzf.c' || echo './'`bgzf.c g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-dgeev.o `test -f 'dgeev.cpp' || echo './'`dgeev.cpp g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-entry.o `test -f 'entry.cpp' || echo './'`entry.cpp g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-entry_filters.o `test -f 'entry_filters.cpp' || echo './'`entry_filters.cpp g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-entry_getters.o `test -f 'entry_getters.cpp' || echo './'`entry_getters.cpp g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-entry_setters.o `test -f 'entry_setters.cpp' || echo './'`entry_setters.cpp g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-gamma.o `test -f 'gamma.cpp' || echo './'`gamma.cpp g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-header.o `test -f 'header.cpp' || echo './'`header.cpp gcc -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-knetfile.o `test -f 'knetfile.c' || echo './'`knetfile.c g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-output_log.o `test -f 'output_log.cpp' || echo './'`output_log.cpp bgzf.c: In function 'bgzf_check_EOF': bgzf.c:60:34: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 60 | #define _bgzf_read(fp, buf, len) fread((buf), 1, (len), (FILE*)(fp)) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ bgzf.c:622:9: note: in expansion of macro '_bgzf_read' 622 | _bgzf_read(fp->fp, buf, 28); | ^~~~~~~~~~ In file included from knetfile.c:46: knetfile.c: In function 'kftp_send_cmd': knetfile.h:9:32: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 9 | #define netwrite(fd, ptr, len) write(fd, ptr, len) | ^~~~~~~~~~~~~~~~~~~ knetfile.c:236:9: note: in expansion of macro 'netwrite' 236 | netwrite(ftp->ctrl_fd, cmd, strlen(cmd)); | ^~~~~~~~ knetfile.c: In function 'khttp_connect_file': knetfile.h:9:32: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 9 | #define netwrite(fd, ptr, len) write(fd, ptr, len) | ^~~~~~~~~~~~~~~~~~~ knetfile.c:415:9: note: in expansion of macro 'netwrite' 415 | netwrite(fp->fd, buf, l); | ^~~~~~~~ g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-parameters.o `test -f 'parameters.cpp' || echo './'`parameters.cpp g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-variant_file.o `test -f 'variant_file.cpp' || echo './'`variant_file.cpp g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-variant_file_diff.o `test -f 'variant_file_diff.cpp' || echo './'`variant_file_diff.cpp g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-variant_file_filters.o `test -f 'variant_file_filters.cpp' || echo './'`variant_file_filters.cpp g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-variant_file_format_convert.o `test -f 'variant_file_format_convert.cpp' || echo './'`variant_file_format_convert.cpp g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-variant_file_output.o `test -f 'variant_file_output.cpp' || echo './'`variant_file_output.cpp g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-vcf_entry.o `test -f 'vcf_entry.cpp' || echo './'`vcf_entry.cpp variant_file_filters.cpp: In member function 'void variant_file::filter_individuals_randomly(int)': variant_file_filters.cpp:129:23: warning: 'void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]' is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 129 | random_shuffle(keep_index.begin(), keep_index.end()); // Get a random order | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/15/algorithm:63, from variant_file.h:15, from variant_file_filters.cpp:7: /usr/include/c++/15/bits/stl_algo.h:4537:5: note: declared here 4537 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-vcf_entry_setters.o `test -f 'vcf_entry_setters.cpp' || echo './'`vcf_entry_setters.cpp g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-vcf_file.o `test -f 'vcf_file.cpp' || echo './'`vcf_file.cpp g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-vcftools.o `test -f 'vcftools.cpp' || echo './'`vcftools.cpp In file included from /usr/include/c++/15/bits/stl_algobase.h:64, from /usr/include/c++/15/algorithm:62, from variant_file.h:15, from variant_file_output.cpp:8: /usr/include/c++/15/bits/stl_pair.h: In instantiation of 'constexpr std::pair::type>::__type, typename std::__strip_reference_wrapper::type>::__type> std::make_pair(_T1&&, _T2&&) [with _T1 = double&; _T2 = double&; typename __strip_reference_wrapper::type>::__type = double; typename decay<_Tp>::type = double; typename __strip_reference_wrapper::type>::__type = double; typename decay<_Tp2>::type = double]': variant_file_output.cpp:4496:39: required from here 4496 | p_emission[ui].push_back(make_pair(p_emission_given_auto, p_emission_given_nonauto)); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_pair.h:1164:5: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 1164 | make_pair(_T1&& __x, _T2&& __y) | ^~~~~~~~~ g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wl,-z,relro -Wl,-z,now -o vcftools vcftools-bcf_entry.o vcftools-bcf_entry_setters.o vcftools-bcf_file.o vcftools-bgzf.o vcftools-dgeev.o vcftools-entry.o vcftools-entry_filters.o vcftools-entry_getters.o vcftools-entry_setters.o vcftools-gamma.o vcftools-header.o vcftools-knetfile.o vcftools-output_log.o vcftools-parameters.o vcftools-variant_file.o vcftools-variant_file_diff.o vcftools-variant_file_filters.o vcftools-variant_file_format_convert.o vcftools-variant_file_output.o vcftools-vcf_entry.o vcftools-vcf_entry_setters.o vcftools-vcf_file.o vcftools-vcftools.o -lz make[4]: Leaving directory '/build/reproducible-path/vcftools-0.1.17/src/cpp' Making all in perl make[4]: Entering directory '/build/reproducible-path/vcftools-0.1.17/src/perl' make[4]: Nothing to be done for 'all'. make[4]: Leaving directory '/build/reproducible-path/vcftools-0.1.17/src/perl' make[4]: Entering directory '/build/reproducible-path/vcftools-0.1.17/src' make[4]: Nothing to be done for 'all-am'. make[4]: Leaving directory '/build/reproducible-path/vcftools-0.1.17/src' make[3]: Leaving directory '/build/reproducible-path/vcftools-0.1.17/src' make[3]: Entering directory '/build/reproducible-path/vcftools-0.1.17' make[3]: Leaving directory '/build/reproducible-path/vcftools-0.1.17' make[2]: Leaving directory '/build/reproducible-path/vcftools-0.1.17' make[1]: Leaving directory '/build/reproducible-path/vcftools-0.1.17' dh_auto_test make -j12 check TESTSUITEFLAGS="-j12 --verbose" VERBOSE=1 make[1]: Entering directory '/build/reproducible-path/vcftools-0.1.17' Making check in src make[2]: Entering directory '/build/reproducible-path/vcftools-0.1.17/src' Making check in cpp make[3]: Entering directory '/build/reproducible-path/vcftools-0.1.17/src/cpp' make[3]: Nothing to be done for 'check'. make[3]: Leaving directory '/build/reproducible-path/vcftools-0.1.17/src/cpp' Making check in perl make[3]: Entering directory '/build/reproducible-path/vcftools-0.1.17/src/perl' make[3]: Nothing to be done for 'check'. make[3]: Leaving directory '/build/reproducible-path/vcftools-0.1.17/src/perl' make[3]: Entering directory '/build/reproducible-path/vcftools-0.1.17/src' make[3]: Nothing to be done for 'check-am'. make[3]: Leaving directory '/build/reproducible-path/vcftools-0.1.17/src' make[2]: Leaving directory '/build/reproducible-path/vcftools-0.1.17/src' make[2]: Entering directory '/build/reproducible-path/vcftools-0.1.17' make[2]: Leaving directory '/build/reproducible-path/vcftools-0.1.17' make[1]: Leaving directory '/build/reproducible-path/vcftools-0.1.17' rm -fr -- /tmp/dh-xdg-rundir-j1GV_vU2 create-stamp debian/debhelper-build-stamp dh_prep rm -f -- debian/vcftools.substvars rm -fr -- debian/.debhelper/generated/vcftools/ debian/vcftools/ debian/tmp/ dh_auto_install --destdir=debian/vcftools/ install -m0755 -d /build/reproducible-path/vcftools-0.1.17/debian/vcftools make -j12 install DESTDIR=/build/reproducible-path/vcftools-0.1.17/debian/vcftools AM_UPDATE_INFO_DIR=no make[1]: Entering directory '/build/reproducible-path/vcftools-0.1.17' Making install in src make[2]: Entering directory '/build/reproducible-path/vcftools-0.1.17/src' Making install in cpp make[3]: Entering directory '/build/reproducible-path/vcftools-0.1.17/src/cpp' make[4]: Entering directory '/build/reproducible-path/vcftools-0.1.17/src/cpp' /usr/bin/mkdir -p '/build/reproducible-path/vcftools-0.1.17/debian/vcftools/usr/bin' /usr/bin/mkdir -p '/build/reproducible-path/vcftools-0.1.17/debian/vcftools/usr/share/man/man1' /usr/bin/install -c vcftools '/build/reproducible-path/vcftools-0.1.17/debian/vcftools/usr/bin' /usr/bin/install -c -m 644 vcftools.1 '/build/reproducible-path/vcftools-0.1.17/debian/vcftools/usr/share/man/man1' make[4]: Leaving directory '/build/reproducible-path/vcftools-0.1.17/src/cpp' make[3]: Leaving directory '/build/reproducible-path/vcftools-0.1.17/src/cpp' Making install in perl make[3]: Entering directory '/build/reproducible-path/vcftools-0.1.17/src/perl' make[4]: Entering directory '/build/reproducible-path/vcftools-0.1.17/src/perl' /usr/bin/mkdir -p '/build/reproducible-path/vcftools-0.1.17/debian/vcftools/usr/bin' /usr/bin/mkdir -p '/build/reproducible-path/vcftools-0.1.17/debian/vcftools/usr//share/perl5' /usr/bin/install -c -m 644 FaSlice.pm Vcf.pm VcfStats.pm '/build/reproducible-path/vcftools-0.1.17/debian/vcftools/usr//share/perl5' /usr/bin/install -c fill-aa fill-an-ac fill-fs fill-ref-md5 vcf-annotate vcf-compare vcf-concat vcf-consensus vcf-contrast vcf-convert vcf-fix-newlines vcf-fix-ploidy vcf-indel-stats vcf-isec vcf-merge vcf-phased-join vcf-query vcf-shuffle-cols vcf-sort vcf-stats vcf-subset vcf-to-tab vcf-tstv vcf-validator '/build/reproducible-path/vcftools-0.1.17/debian/vcftools/usr/bin' make[4]: Leaving directory '/build/reproducible-path/vcftools-0.1.17/src/perl' make[3]: Leaving directory '/build/reproducible-path/vcftools-0.1.17/src/perl' make[3]: Entering directory '/build/reproducible-path/vcftools-0.1.17/src' make[4]: Entering directory '/build/reproducible-path/vcftools-0.1.17/src' make[4]: Nothing to be done for 'install-exec-am'. make[4]: Nothing to be done for 'install-data-am'. make[4]: Leaving directory '/build/reproducible-path/vcftools-0.1.17/src' make[3]: Leaving directory '/build/reproducible-path/vcftools-0.1.17/src' make[2]: Leaving directory '/build/reproducible-path/vcftools-0.1.17/src' make[2]: Entering directory '/build/reproducible-path/vcftools-0.1.17' make[3]: Entering directory '/build/reproducible-path/vcftools-0.1.17' make[3]: Nothing to be done for 'install-exec-am'. make[3]: Nothing to be done for 'install-data-am'. make[3]: Leaving directory '/build/reproducible-path/vcftools-0.1.17' make[2]: Leaving directory '/build/reproducible-path/vcftools-0.1.17' make[1]: Leaving directory '/build/reproducible-path/vcftools-0.1.17' rm -f debian/vcftools.debhelper.log debian/rules override_dh_install make[1]: Entering directory '/build/reproducible-path/vcftools-0.1.17' dh_install for perlscript in `grep -l '#!/usr/bin/env \+perl' debian/*/usr/bin/*` ; do \ sed -i '1s+#!/usr/bin/env perl+#!/usr/bin/perl+' ${perlscript} ; \ done make[1]: Leaving directory '/build/reproducible-path/vcftools-0.1.17' dh_installdocs install -m0755 -d debian/vcftools/usr/share/doc/vcftools install -m0755 -d debian/vcftools/usr/share/doc/vcftools cp --reflink=auto -a ./debian/README.test debian/vcftools/usr/share/doc/vcftools cp --reflink=auto -a ./debian/tests/run-unit-test debian/vcftools/usr/share/doc/vcftools chmod -R u\+rw,go=rX debian/vcftools/usr/share/doc install -p -m0644 debian/copyright debian/vcftools/usr/share/doc/vcftools/copyright rm -f debian/vcftools.debhelper.log debian/rules override_dh_installchangelogs make[1]: Entering directory '/build/reproducible-path/vcftools-0.1.17' dh_installchangelogs src/perl/ChangeLog install -m0755 -d debian/vcftools/usr/share/doc/vcftools install -p -m0644 debian/.debhelper/generated/vcftools/dh_installchangelogs.dch.trimmed debian/vcftools/usr/share/doc/vcftools/changelog.Debian install -p -m0644 src/perl/ChangeLog debian/vcftools/usr/share/doc/vcftools/changelog make[1]: Leaving directory '/build/reproducible-path/vcftools-0.1.17' rm -f debian/vcftools.debhelper.log debian/rules override_dh_installexamples make[1]: Entering directory '/build/reproducible-path/vcftools-0.1.17' dh_installexamples; mkdir -p /build/reproducible-path/vcftools-0.1.17/debian/vcftools/usr/share/doc/vcftools/examples/testsuite; mkdir -p /build/reproducible-path/vcftools-0.1.17/debian/vcftools/usr/share/doc/vcftools/examples/testdata; cp ./examples/* /build/reproducible-path/vcftools-0.1.17/debian/vcftools/usr/share/doc/vcftools/examples/testdata/; find ./src/perl/ \( -name "*.pm" -o -name "*fill*" -o -name "test.t" \) -exec cp \{\} /build/reproducible-path/vcftools-0.1.17/debian/vcftools/usr/share/doc/vcftools/examples/testsuite \; sed -i 's#examples#testdata#g' /build/reproducible-path/vcftools-0.1.17/debian/vcftools/usr/share/doc/vcftools/examples/testsuite/test.t; sed -i 's#I\.\./perl/#I\.\./\.#g' /build/reproducible-path/vcftools-0.1.17/debian/vcftools/usr/share/doc/vcftools/examples/testsuite/test.t; sed -i 's#\.\./perl/#/usr/bin/#g' /build/reproducible-path/vcftools-0.1.17/debian/vcftools/usr/share/doc/vcftools/examples/testsuite/test.t; for perlscript in `grep -lR '#!/usr/bin/env \+perl' debian/*/usr/share/doc/vcftools/examples` ; do \ sed -i '1s+#!/usr/bin/env perl+#!/usr/bin/perl+' ${perlscript} ; \ done make[1]: Leaving directory '/build/reproducible-path/vcftools-0.1.17' dh_installman install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./debian/mans/fill-aa.1 debian/vcftools/usr/share/man/man1/fill-aa.1 install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./debian/mans/fill-an-ac.1 debian/vcftools/usr/share/man/man1/fill-an-ac.1 install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./debian/mans/fill-fs.1 debian/vcftools/usr/share/man/man1/fill-fs.1 install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./debian/mans/fill-ref-md5.1 debian/vcftools/usr/share/man/man1/fill-ref-md5.1 install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./debian/mans/fill-rsIDs.1 debian/vcftools/usr/share/man/man1/fill-rsIDs.1 install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./debian/mans/vcf-annotate.1 debian/vcftools/usr/share/man/man1/vcf-annotate.1 install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./debian/mans/vcf-compare.1 debian/vcftools/usr/share/man/man1/vcf-compare.1 install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./debian/mans/vcf-concat.1 debian/vcftools/usr/share/man/man1/vcf-concat.1 install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./debian/mans/vcf-consensus.1 debian/vcftools/usr/share/man/man1/vcf-consensus.1 install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./debian/mans/vcf-contrast.1 debian/vcftools/usr/share/man/man1/vcf-contrast.1 install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./debian/mans/vcf-convert.1 debian/vcftools/usr/share/man/man1/vcf-convert.1 install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./debian/mans/vcf-fix-newlines.1 debian/vcftools/usr/share/man/man1/vcf-fix-newlines.1 install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./debian/mans/vcf-fix-ploidy.1 debian/vcftools/usr/share/man/man1/vcf-fix-ploidy.1 install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./debian/mans/vcf-indel-stats.1 debian/vcftools/usr/share/man/man1/vcf-indel-stats.1 install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./debian/mans/vcf-isec.1 debian/vcftools/usr/share/man/man1/vcf-isec.1 install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./debian/mans/vcf-merge.1 debian/vcftools/usr/share/man/man1/vcf-merge.1 install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./debian/mans/vcf-phased-join.1 debian/vcftools/usr/share/man/man1/vcf-phased-join.1 install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./debian/mans/vcf-query.1 debian/vcftools/usr/share/man/man1/vcf-query.1 install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./debian/mans/vcf-shuffle-cols.1 debian/vcftools/usr/share/man/man1/vcf-shuffle-cols.1 install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./debian/mans/vcf-sort.1 debian/vcftools/usr/share/man/man1/vcf-sort.1 install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./debian/mans/vcf-stats.1 debian/vcftools/usr/share/man/man1/vcf-stats.1 install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./debian/mans/vcf-subset.1 debian/vcftools/usr/share/man/man1/vcf-subset.1 install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./debian/mans/vcf-to-tab.1 debian/vcftools/usr/share/man/man1/vcf-to-tab.1 install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./debian/mans/vcf-tstv.1 debian/vcftools/usr/share/man/man1/vcf-tstv.1 install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./debian/mans/vcf-validator.1 debian/vcftools/usr/share/man/man1/vcf-validator.1 install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./src/cpp/vcftools.1 debian/vcftools/usr/share/man/man1/vcftools.1 man-recode --to-code UTF-8 --suffix .dh-new debian/vcftools/usr/share/man/man1/fill-ref-md5.1 debian/vcftools/usr/share/man/man1/fill-rsIDs.1 debian/vcftools/usr/share/man/man1/vcf-annotate.1 man-recode --to-code UTF-8 --suffix .dh-new debian/vcftools/usr/share/man/man1/fill-aa.1 debian/vcftools/usr/share/man/man1/fill-an-ac.1 debian/vcftools/usr/share/man/man1/fill-fs.1 man-recode --to-code UTF-8 --suffix .dh-new debian/vcftools/usr/share/man/man1/vcf-compare.1 debian/vcftools/usr/share/man/man1/vcf-concat.1 debian/vcftools/usr/share/man/man1/vcf-consensus.1 man-recode --to-code UTF-8 --suffix .dh-new debian/vcftools/usr/share/man/man1/vcf-merge.1 debian/vcftools/usr/share/man/man1/vcf-phased-join.1 debian/vcftools/usr/share/man/man1/vcf-query.1 man-recode --to-code UTF-8 --suffix .dh-new debian/vcftools/usr/share/man/man1/vcf-fix-ploidy.1 debian/vcftools/usr/share/man/man1/vcf-indel-stats.1 debian/vcftools/usr/share/man/man1/vcf-isec.1 man-recode --to-code UTF-8 --suffix .dh-new debian/vcftools/usr/share/man/man1/vcf-shuffle-cols.1 debian/vcftools/usr/share/man/man1/vcf-sort.1 debian/vcftools/usr/share/man/man1/vcf-stats.1 man-recode --to-code UTF-8 --suffix .dh-new debian/vcftools/usr/share/man/man1/vcf-subset.1 debian/vcftools/usr/share/man/man1/vcf-to-tab.1 debian/vcftools/usr/share/man/man1/vcf-tstv.1 man-recode --to-code UTF-8 --suffix .dh-new debian/vcftools/usr/share/man/man1/vcf-contrast.1 debian/vcftools/usr/share/man/man1/vcf-convert.1 debian/vcftools/usr/share/man/man1/vcf-fix-newlines.1 man-recode --to-code UTF-8 --suffix .dh-new debian/vcftools/usr/share/man/man1/vcf-validator.1 debian/vcftools/usr/share/man/man1/vcftools.1 mv debian/vcftools/usr/share/man/man1/vcf-contrast.1.dh-new debian/vcftools/usr/share/man/man1/vcf-contrast.1 mv debian/vcftools/usr/share/man/man1/vcf-convert.1.dh-new debian/vcftools/usr/share/man/man1/vcf-convert.1 mv debian/vcftools/usr/share/man/man1/vcf-fix-newlines.1.dh-new debian/vcftools/usr/share/man/man1/vcf-fix-newlines.1 chmod 0644 -- debian/vcftools/usr/share/man/man1/vcf-contrast.1 debian/vcftools/usr/share/man/man1/vcf-convert.1 debian/vcftools/usr/share/man/man1/vcf-fix-newlines.1 mv debian/vcftools/usr/share/man/man1/vcf-validator.1.dh-new debian/vcftools/usr/share/man/man1/vcf-validator.1 mv debian/vcftools/usr/share/man/man1/vcftools.1.dh-new debian/vcftools/usr/share/man/man1/vcftools.1 chmod 0644 -- debian/vcftools/usr/share/man/man1/vcf-validator.1 debian/vcftools/usr/share/man/man1/vcftools.1 mv debian/vcftools/usr/share/man/man1/vcf-subset.1.dh-new debian/vcftools/usr/share/man/man1/vcf-subset.1 mv debian/vcftools/usr/share/man/man1/vcf-to-tab.1.dh-new debian/vcftools/usr/share/man/man1/vcf-to-tab.1 mv debian/vcftools/usr/share/man/man1/vcf-tstv.1.dh-new debian/vcftools/usr/share/man/man1/vcf-tstv.1 chmod 0644 -- debian/vcftools/usr/share/man/man1/vcf-subset.1 debian/vcftools/usr/share/man/man1/vcf-to-tab.1 debian/vcftools/usr/share/man/man1/vcf-tstv.1 mv debian/vcftools/usr/share/man/man1/fill-aa.1.dh-new debian/vcftools/usr/share/man/man1/fill-aa.1 mv debian/vcftools/usr/share/man/man1/fill-an-ac.1.dh-new debian/vcftools/usr/share/man/man1/fill-an-ac.1 mv debian/vcftools/usr/share/man/man1/fill-fs.1.dh-new debian/vcftools/usr/share/man/man1/fill-fs.1 chmod 0644 -- debian/vcftools/usr/share/man/man1/fill-aa.1 debian/vcftools/usr/share/man/man1/fill-an-ac.1 debian/vcftools/usr/share/man/man1/fill-fs.1 mv debian/vcftools/usr/share/man/man1/vcf-fix-ploidy.1.dh-new debian/vcftools/usr/share/man/man1/vcf-fix-ploidy.1 mv debian/vcftools/usr/share/man/man1/vcf-indel-stats.1.dh-new debian/vcftools/usr/share/man/man1/vcf-indel-stats.1 mv debian/vcftools/usr/share/man/man1/vcf-isec.1.dh-new debian/vcftools/usr/share/man/man1/vcf-isec.1 chmod 0644 -- debian/vcftools/usr/share/man/man1/vcf-fix-ploidy.1 debian/vcftools/usr/share/man/man1/vcf-indel-stats.1 debian/vcftools/usr/share/man/man1/vcf-isec.1 mv debian/vcftools/usr/share/man/man1/vcf-shuffle-cols.1.dh-new debian/vcftools/usr/share/man/man1/vcf-shuffle-cols.1 mv debian/vcftools/usr/share/man/man1/vcf-sort.1.dh-new debian/vcftools/usr/share/man/man1/vcf-sort.1 mv debian/vcftools/usr/share/man/man1/vcf-stats.1.dh-new debian/vcftools/usr/share/man/man1/vcf-stats.1 chmod 0644 -- debian/vcftools/usr/share/man/man1/vcf-shuffle-cols.1 debian/vcftools/usr/share/man/man1/vcf-sort.1 debian/vcftools/usr/share/man/man1/vcf-stats.1 mv debian/vcftools/usr/share/man/man1/fill-ref-md5.1.dh-new debian/vcftools/usr/share/man/man1/fill-ref-md5.1 mv debian/vcftools/usr/share/man/man1/fill-rsIDs.1.dh-new debian/vcftools/usr/share/man/man1/fill-rsIDs.1 mv debian/vcftools/usr/share/man/man1/vcf-annotate.1.dh-new debian/vcftools/usr/share/man/man1/vcf-annotate.1 chmod 0644 -- debian/vcftools/usr/share/man/man1/fill-ref-md5.1 debian/vcftools/usr/share/man/man1/fill-rsIDs.1 debian/vcftools/usr/share/man/man1/vcf-annotate.1 mv debian/vcftools/usr/share/man/man1/vcf-compare.1.dh-new debian/vcftools/usr/share/man/man1/vcf-compare.1 mv debian/vcftools/usr/share/man/man1/vcf-concat.1.dh-new debian/vcftools/usr/share/man/man1/vcf-concat.1 mv debian/vcftools/usr/share/man/man1/vcf-consensus.1.dh-new debian/vcftools/usr/share/man/man1/vcf-consensus.1 chmod 0644 -- debian/vcftools/usr/share/man/man1/vcf-compare.1 debian/vcftools/usr/share/man/man1/vcf-concat.1 debian/vcftools/usr/share/man/man1/vcf-consensus.1 mv debian/vcftools/usr/share/man/man1/vcf-merge.1.dh-new debian/vcftools/usr/share/man/man1/vcf-merge.1 mv debian/vcftools/usr/share/man/man1/vcf-phased-join.1.dh-new debian/vcftools/usr/share/man/man1/vcf-phased-join.1 mv debian/vcftools/usr/share/man/man1/vcf-query.1.dh-new debian/vcftools/usr/share/man/man1/vcf-query.1 chmod 0644 -- debian/vcftools/usr/share/man/man1/vcf-merge.1 debian/vcftools/usr/share/man/man1/vcf-phased-join.1 debian/vcftools/usr/share/man/man1/vcf-query.1 dh_perl mv debian/vcftools.substvars.new debian/vcftools.substvars rmdir --ignore-fail-on-non-empty --parents debian/vcftools/usr/share/perl5 dh_link dh_strip_nondeterminism dh_compress cd debian/vcftools chmod a-x usr/share/doc/vcftools/changelog usr/share/doc/vcftools/changelog.Debian usr/share/man/man1/fill-aa.1 usr/share/man/man1/fill-an-ac.1 usr/share/man/man1/fill-fs.1 usr/share/man/man1/fill-ref-md5.1 usr/share/man/man1/fill-rsIDs.1 usr/share/man/man1/vcf-annotate.1 usr/share/man/man1/vcf-compare.1 usr/share/man/man1/vcf-concat.1 usr/share/man/man1/vcf-consensus.1 usr/share/man/man1/vcf-contrast.1 usr/share/man/man1/vcf-convert.1 usr/share/man/man1/vcf-fix-newlines.1 usr/share/man/man1/vcf-fix-ploidy.1 usr/share/man/man1/vcf-indel-stats.1 usr/share/man/man1/vcf-isec.1 usr/share/man/man1/vcf-merge.1 usr/share/man/man1/vcf-phased-join.1 usr/share/man/man1/vcf-query.1 usr/share/man/man1/vcf-shuffle-cols.1 usr/share/man/man1/vcf-sort.1 usr/share/man/man1/vcf-stats.1 usr/share/man/man1/vcf-subset.1 usr/share/man/man1/vcf-to-tab.1 usr/share/man/man1/vcf-tstv.1 usr/share/man/man1/vcf-validator.1 usr/share/man/man1/vcftools.1 gzip -9nf usr/share/doc/vcftools/changelog usr/share/doc/vcftools/changelog.Debian usr/share/man/man1/fill-aa.1 usr/share/man/man1/fill-an-ac.1 usr/share/man/man1/fill-fs.1 usr/share/man/man1/fill-ref-md5.1 usr/share/man/man1/fill-rsIDs.1 usr/share/man/man1/vcf-annotate.1 usr/share/man/man1/vcf-compare.1 usr/share/man/man1/vcf-concat.1 usr/share/man/man1/vcf-consensus.1 usr/share/man/man1/vcf-contrast.1 usr/share/man/man1/vcf-convert.1 usr/share/man/man1/vcf-fix-newlines.1 usr/share/man/man1/vcf-fix-ploidy.1 usr/share/man/man1/vcf-indel-stats.1 usr/share/man/man1/vcf-isec.1 usr/share/man/man1/vcf-merge.1 usr/share/man/man1/vcf-phased-join.1 usr/share/man/man1/vcf-query.1 usr/share/man/man1/vcf-shuffle-cols.1 usr/share/man/man1/vcf-sort.1 usr/share/man/man1/vcf-stats.1 usr/share/man/man1/vcf-subset.1 usr/share/man/man1/vcf-to-tab.1 usr/share/man/man1/vcf-tstv.1 usr/share/man/man1/vcf-validator.1 usr/share/man/man1/vcftools.1 cd '/build/reproducible-path/vcftools-0.1.17' dh_fixperms find debian/vcftools ! -type l -a -true -a -true -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s find debian/vcftools/usr/share/doc -type f -a -true -a ! -regex 'debian/vcftools/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644 find debian/vcftools/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 find debian/vcftools/usr/share/man -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/vcftools/usr/share/perl5 -type f -perm -5 -name '*.pm' -a -true -a -true -print0 2>/dev/null | xargs -0r chmod a-X find debian/vcftools -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/vcftools/usr/bin -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod a+x dh_missing dh_dwz -a dwz -- debian/vcftools/usr/bin/vcftools dh_strip -a install -m0755 -d debian/.debhelper/vcftools/dbgsym-root/usr/lib/debug/.build-id/86 objcopy --only-keep-debug --compress-debug-sections debian/vcftools/usr/bin/vcftools debian/.debhelper/vcftools/dbgsym-root/usr/lib/debug/.build-id/86/17d71233c83b12875e1f5abd8648822d77215c.debug chmod 0644 -- debian/.debhelper/vcftools/dbgsym-root/usr/lib/debug/.build-id/86/17d71233c83b12875e1f5abd8648822d77215c.debug strip --remove-section=.comment --remove-section=.note debian/vcftools/usr/bin/vcftools objcopy --add-gnu-debuglink debian/.debhelper/vcftools/dbgsym-root/usr/lib/debug/.build-id/86/17d71233c83b12875e1f5abd8648822d77215c.debug debian/vcftools/usr/bin/vcftools install -m0755 -d debian/.debhelper/vcftools/dbgsym-root/usr/share/doc ln -s vcftools debian/.debhelper/vcftools/dbgsym-root/usr/share/doc/vcftools-dbgsym install -m0755 -d debian/.debhelper/vcftools dh_makeshlibs -a rm -f debian/vcftools/DEBIAN/shlibs dh_shlibdeps -a install -m0755 -d debian/vcftools/DEBIAN dpkg-shlibdeps -Tdebian/vcftools.substvars debian/vcftools/usr/bin/vcftools dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 from: /lib/ld-linux-aarch64.so.1 dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 to: /lib/ld-linux-aarch64.so.1.usr-is-merged dh_installdeb install -m0755 -d debian/vcftools/DEBIAN dh_gencontrol install -m0755 -d debian/vcftools/DEBIAN echo misc:Depends= >> debian/vcftools.substvars echo misc:Pre-Depends= >> debian/vcftools.substvars install -m0755 -d debian/.debhelper/vcftools/dbgsym-root/DEBIAN dpkg-gencontrol -pvcftools -ldebian/changelog -Tdebian/vcftools.substvars -cdebian/control -Pdebian/.debhelper/vcftools/dbgsym-root -UPre-Depends -URecommends -USuggests -UEnhances -UProvides -UEssential -UConflicts -DPriority=optional -UHomepage -UImportant -DAuto-Built-Package=debug-symbols -UProtected -UBuilt-Using -UStatic-Built-Using -DPackage=vcftools-dbgsym -DDepends="vcftools (= \${binary:Version})" -DDescription="debug symbols for vcftools" -DBuild-Ids=8617d71233c83b12875e1f5abd8648822d77215c -DSection=debug -UMulti-Arch -UReplaces -UBreaks chmod 0644 -- debian/.debhelper/vcftools/dbgsym-root/DEBIAN/control dpkg-gencontrol -pvcftools -ldebian/changelog -Tdebian/vcftools.substvars -cdebian/control -Pdebian/vcftools chmod 0644 -- debian/vcftools/DEBIAN/control dh_md5sums install -m0755 -d debian/vcftools/DEBIAN cd debian/vcftools >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums chmod 0644 -- debian/vcftools/DEBIAN/md5sums install -m0755 -d debian/.debhelper/vcftools/dbgsym-root/DEBIAN cd debian/.debhelper/vcftools/dbgsym-root >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums chmod 0644 -- debian/.debhelper/vcftools/dbgsym-root/DEBIAN/md5sums dh_builddeb dpkg-deb --root-owner-group --build debian/.debhelper/vcftools/dbgsym-root .. dpkg-deb --root-owner-group --build debian/vcftools .. dpkg-deb: building package 'vcftools-dbgsym' in '../vcftools-dbgsym_0.1.17-1_arm64.deb'. dpkg-deb: building package 'vcftools' in '../vcftools_0.1.17-1_arm64.deb'. dpkg-genbuildinfo --build=binary -O../vcftools_0.1.17-1_arm64.buildinfo dpkg-genchanges --build=binary -O../vcftools_0.1.17-1_arm64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: including full source code in upload I: copying local configuration 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/3574780 and its subdirectories I: Current time: Thu Oct 30 10:45:46 -12 2025 I: pbuilder-time-stamp: 1761864346 Thu Oct 30 22:45:48 UTC 2025 I: 1st build successful. Starting 2nd build on remote node codethink04-arm64.debian.net. Thu Oct 30 22:45:48 UTC 2025 I: Preparing to do remote build '2' on codethink04-arm64.debian.net. Thu Oct 30 22:45:49 UTC 2025 - checking /var/lib/jenkins/offline_nodes if codethink04-arm64.debian.net is marked as down. Thu Oct 30 22:45:49 UTC 2025 - checking via ssh if codethink04-arm64.debian.net is up. removed '/tmp/read-only-fs-test-BtEZHk' ==================================================================================== Thu Oct 30 22:45:49 UTC 2025 - running /srv/jenkins/bin/reproducible_build.sh (for job /srv/jenkins/bin/reproducible_build.sh) on codethink04-arm64, called using "2 vcftools forky /srv/reproducible-results/rbuild-debian/r-b-build.7IOTWDbZ 0.1.17-1" as arguments. Thu Oct 30 22:45:49 UTC 2025 - actually running "reproducible_build.sh" (md5sum cc591790ab2c8e13f5e554202b95c89c) as "/tmp/jenkins-script-uku0fwqR" $ git clone https://salsa.debian.org/qa/jenkins.debian.net.git ; more CONTRIBUTING Thu Oct 30 22:45:50 UTC 2025 I: Downloading source for forky/vcftools=0.1.17-1 Reading package lists... NOTICE: 'vcftools' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/vcftools.git Please use: git clone https://salsa.debian.org/med-team/vcftools.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 264 kB of source archives. Get:1 http://deb.debian.org/debian forky/main vcftools 0.1.17-1 (dsc) [2043 B] Get:2 http://deb.debian.org/debian forky/main vcftools 0.1.17-1 (tar) [248 kB] Get:3 http://deb.debian.org/debian forky/main vcftools 0.1.17-1 (diff) [14.0 kB] Fetched 264 kB in 0s (12.9 MB/s) Download complete and in download only mode Reading package lists... NOTICE: 'vcftools' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/vcftools.git Please use: git clone https://salsa.debian.org/med-team/vcftools.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 264 kB of source archives. Get:1 http://deb.debian.org/debian forky/main vcftools 0.1.17-1 (dsc) [2043 B] Get:2 http://deb.debian.org/debian forky/main vcftools 0.1.17-1 (tar) [248 kB] Get:3 http://deb.debian.org/debian forky/main vcftools 0.1.17-1 (diff) [14.0 kB] Fetched 264 kB in 0s (12.9 MB/s) Download complete and in download only mode ============================================================================= Re-Building vcftools in forky on arm64 on codethink04-arm64 now. Date: Thu Oct 30 22:45:50 GMT 2025 Date UTC: Thu Oct 30 22:45:50 UTC 2025 ============================================================================= ++ mktemp -t pbuilderrc_XXXX --tmpdir=/srv/reproducible-results/rbuild-debian/r-b-build.7IOTWDbZ + local TMPCFG=/srv/reproducible-results/rbuild-debian/r-b-build.7IOTWDbZ/pbuilderrc_WHJ2 + case ${ARCH} in + case $ARCH in + locale=nl_BE + language=nl + case "${SUITE}" in + reproducible_buildflags=+all + extra_deb_build_options= + case "${SRCPACKAGE}" in + cat + echo BUILDDIR=/build/reproducible-path + '[' vcftools = debian-installer -o vcftools = debian-installer-netboot-images ']' + pbuilder_options=() + local pbuilder_options + DEBBUILDOPTS=-b + BINARYTARGET= + '[' vcftools = u-boot ']' + case "${SRCPACKAGE}" in + PBUILDERTIMEOUT=24 + local PRESULT=0 + sudo 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.7IOTWDbZ/pbuilderrc_WHJ2 --distribution forky --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/forky-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.7IOTWDbZ/b2 --logfile b2/build.log vcftools_0.1.17-1.dsc W: /root/.pbuilderrc does not exist I: Logging to b2/build.log I: pbuilder: network access will be disabled during build I: Current time: Fri Oct 31 12:45:50 +14 2025 I: pbuilder-time-stamp: 1761864350 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/forky-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [vcftools_0.1.17-1.dsc] I: copying [./vcftools_0.1.17.orig.tar.gz] I: copying [./vcftools_0.1.17-1.debian.tar.xz] I: Extracting source dpkg-source: warning: cannot verify inline signature for ./vcftools_0.1.17-1.dsc: no acceptable signature found dpkg-source: info: extracting vcftools in vcftools-0.1.17 dpkg-source: info: unpacking vcftools_0.1.17.orig.tar.gz dpkg-source: info: unpacking vcftools_0.1.17-1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying temporary_test_fix.patch dpkg-source: info: applying spelling.patch dpkg-source: info: applying manpage.patch dpkg-source: info: applying 0001-vcf-fix-ploidy-make-p-work-without-.-on-INC.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/2220918/tmp/hooks/D01_modify_environment starting debug: Running on codethink04-arm64. 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 Oct 30 22:45 /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/2220918/tmp/hooks/D01_modify_environment finished I: user script /srv/workspace/pbuilder/2220918/tmp/hooks/D02_print_environment starting I: set 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]="3" [2]="3" [3]="1" [4]="release" [5]="aarch64-unknown-linux-gnu") BASH_VERSION='5.3.3(1)-release' BUILDDIR=/build/reproducible-path BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' BUILDUSERNAME=pbuilder2 BUILD_ARCH=arm64 DEBIAN_FRONTEND=noninteractive DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 ' DIRSTACK=() DISTRIBUTION=forky EUID=0 FUNCNAME=([0]="Echo" [1]="main") GROUPS=() HOME=/root HOSTNAME=i-capture-the-hostname HOSTTYPE=aarch64 HOST_ARCH=arm64 IFS=' ' INVOCATION_ID=cd16a95c739b45a3808fa5940eed85e9 LANG=C LANGUAGE=nl_BE:nl LC_ALL=C MACHTYPE=aarch64-unknown-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=2220918 PS4='+ ' 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.7IOTWDbZ/pbuilderrc_WHJ2 --distribution forky --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/forky-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.7IOTWDbZ/b2 --logfile b2/build.log vcftools_0.1.17-1.dsc' SUDO_GID=109 SUDO_HOME=/var/lib/jenkins SUDO_UID=104 SUDO_USER=jenkins TERM=unknown TZ=/usr/share/zoneinfo/Etc/GMT-14 UID=0 USER=root _='I: set' http_proxy=http://192.168.101.4:3128 I: uname -a Linux i-capture-the-hostname 6.12.48+deb13-cloud-arm64 #1 SMP Debian 6.12.48-1 (2025-09-20) aarch64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Aug 10 12:30 /bin -> usr/bin I: user script /srv/workspace/pbuilder/2220918/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: arm64 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13), pkgconf, zlib1g-dev dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19971 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on pkgconf; however: Package pkgconf is not installed. pbuilder-satisfydepends-dummy depends on zlib1g-dev; however: Package zlib1g-dev is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libdebhelper-perl{a} libelf1t64{a} libfile-stripnondeterminism-perl{a} libmagic-mgc{a} libmagic1t64{a} libpipeline1{a} libpkgconf3{a} libtool{a} libuchardet0{a} libunistring5{a} libxml2-16{a} m4{a} man-db{a} pkgconf{a} pkgconf-bin{a} po-debconf{a} sensible-utils{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: curl libarchive-cpio-perl libltdl-dev libmail-sendmail-perl lynx wget 0 packages upgraded, 33 newly installed, 0 to remove and 0 not upgraded. Need to get 12.0 MB of archives. After unpacking 46.6 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian forky/main arm64 sensible-utils all 0.0.26 [27.0 kB] Get: 2 http://deb.debian.org/debian forky/main arm64 libmagic-mgc arm64 1:5.46-5 [338 kB] Get: 3 http://deb.debian.org/debian forky/main arm64 libmagic1t64 arm64 1:5.46-5 [103 kB] Get: 4 http://deb.debian.org/debian forky/main arm64 file arm64 1:5.46-5 [43.7 kB] Get: 5 http://deb.debian.org/debian forky/main arm64 gettext-base arm64 0.23.1-2+b1 [241 kB] Get: 6 http://deb.debian.org/debian forky/main arm64 libuchardet0 arm64 0.0.8-2 [69.0 kB] Get: 7 http://deb.debian.org/debian forky/main arm64 groff-base arm64 1.23.0-9 [1130 kB] Get: 8 http://deb.debian.org/debian forky/main arm64 bsdextrautils arm64 2.41.2-4 [97.3 kB] Get: 9 http://deb.debian.org/debian forky/main arm64 libpipeline1 arm64 1.5.8-1 [40.2 kB] Get: 10 http://deb.debian.org/debian forky/main arm64 man-db arm64 2.13.1-1 [1453 kB] Get: 11 http://deb.debian.org/debian forky/main arm64 m4 arm64 1.4.20-2 [315 kB] Get: 12 http://deb.debian.org/debian forky/main arm64 autoconf all 2.72-3.1 [494 kB] Get: 13 http://deb.debian.org/debian forky/main arm64 autotools-dev all 20240727.1 [60.2 kB] Get: 14 http://deb.debian.org/debian forky/main arm64 automake all 1:1.18.1-2 [877 kB] Get: 15 http://deb.debian.org/debian forky/main arm64 autopoint all 0.23.1-2 [770 kB] Get: 16 http://deb.debian.org/debian forky/main arm64 libdebhelper-perl all 13.28 [92.4 kB] Get: 17 http://deb.debian.org/debian forky/main arm64 libtool all 2.5.4-7 [540 kB] Get: 18 http://deb.debian.org/debian forky/main arm64 dh-autoreconf all 21 [12.2 kB] Get: 19 http://deb.debian.org/debian forky/main arm64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 20 http://deb.debian.org/debian forky/main arm64 libfile-stripnondeterminism-perl all 1.15.0-1 [19.9 kB] Get: 21 http://deb.debian.org/debian forky/main arm64 dh-strip-nondeterminism all 1.15.0-1 [8812 B] Get: 22 http://deb.debian.org/debian forky/main arm64 libelf1t64 arm64 0.193-3 [189 kB] Get: 23 http://deb.debian.org/debian forky/main arm64 dwz arm64 0.16-2 [100 kB] Get: 24 http://deb.debian.org/debian forky/main arm64 libunistring5 arm64 1.3-2 [453 kB] Get: 25 http://deb.debian.org/debian forky/main arm64 libxml2-16 arm64 2.14.6+dfsg-0.1 [601 kB] Get: 26 http://deb.debian.org/debian forky/main arm64 gettext arm64 0.23.1-2+b1 [1612 kB] Get: 27 http://deb.debian.org/debian forky/main arm64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 28 http://deb.debian.org/debian forky/main arm64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 29 http://deb.debian.org/debian forky/main arm64 debhelper all 13.28 [941 kB] Get: 30 http://deb.debian.org/debian forky/main arm64 libpkgconf3 arm64 1.8.1-4 [35.3 kB] Get: 31 http://deb.debian.org/debian forky/main arm64 pkgconf-bin arm64 1.8.1-4 [29.6 kB] Get: 32 http://deb.debian.org/debian forky/main arm64 pkgconf arm64 1.8.1-4 [26.1 kB] Get: 33 http://deb.debian.org/debian forky/main arm64 zlib1g-dev arm64 1:1.3.dfsg+really1.3.1-1+b1 [917 kB] Fetched 12.0 MB in 0s (89.6 MB/s) Preconfiguring packages ... Selecting previously unselected package sensible-utils. (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 ... 19971 files and directories currently installed.) Preparing to unpack .../00-sensible-utils_0.0.26_all.deb ... Unpacking sensible-utils (0.0.26) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../01-libmagic-mgc_1%3a5.46-5_arm64.deb ... Unpacking libmagic-mgc (1:5.46-5) ... Selecting previously unselected package libmagic1t64:arm64. Preparing to unpack .../02-libmagic1t64_1%3a5.46-5_arm64.deb ... Unpacking libmagic1t64:arm64 (1:5.46-5) ... Selecting previously unselected package file. Preparing to unpack .../03-file_1%3a5.46-5_arm64.deb ... Unpacking file (1:5.46-5) ... Selecting previously unselected package gettext-base. Preparing to unpack .../04-gettext-base_0.23.1-2+b1_arm64.deb ... Unpacking gettext-base (0.23.1-2+b1) ... Selecting previously unselected package libuchardet0:arm64. Preparing to unpack .../05-libuchardet0_0.0.8-2_arm64.deb ... Unpacking libuchardet0:arm64 (0.0.8-2) ... Selecting previously unselected package groff-base. Preparing to unpack .../06-groff-base_1.23.0-9_arm64.deb ... Unpacking groff-base (1.23.0-9) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../07-bsdextrautils_2.41.2-4_arm64.deb ... Unpacking bsdextrautils (2.41.2-4) ... Selecting previously unselected package libpipeline1:arm64. Preparing to unpack .../08-libpipeline1_1.5.8-1_arm64.deb ... Unpacking libpipeline1:arm64 (1.5.8-1) ... Selecting previously unselected package man-db. Preparing to unpack .../09-man-db_2.13.1-1_arm64.deb ... Unpacking man-db (2.13.1-1) ... Selecting previously unselected package m4. Preparing to unpack .../10-m4_1.4.20-2_arm64.deb ... Unpacking m4 (1.4.20-2) ... Selecting previously unselected package autoconf. Preparing to unpack .../11-autoconf_2.72-3.1_all.deb ... Unpacking autoconf (2.72-3.1) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../12-autotools-dev_20240727.1_all.deb ... Unpacking autotools-dev (20240727.1) ... Selecting previously unselected package automake. Preparing to unpack .../13-automake_1%3a1.18.1-2_all.deb ... Unpacking automake (1:1.18.1-2) ... Selecting previously unselected package autopoint. Preparing to unpack .../14-autopoint_0.23.1-2_all.deb ... Unpacking autopoint (0.23.1-2) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../15-libdebhelper-perl_13.28_all.deb ... Unpacking libdebhelper-perl (13.28) ... Selecting previously unselected package libtool. Preparing to unpack .../16-libtool_2.5.4-7_all.deb ... Unpacking libtool (2.5.4-7) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../17-dh-autoreconf_21_all.deb ... Unpacking dh-autoreconf (21) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../18-libarchive-zip-perl_1.68-1_all.deb ... Unpacking libarchive-zip-perl (1.68-1) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../19-libfile-stripnondeterminism-perl_1.15.0-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.15.0-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../20-dh-strip-nondeterminism_1.15.0-1_all.deb ... Unpacking dh-strip-nondeterminism (1.15.0-1) ... Selecting previously unselected package libelf1t64:arm64. Preparing to unpack .../21-libelf1t64_0.193-3_arm64.deb ... Unpacking libelf1t64:arm64 (0.193-3) ... Selecting previously unselected package dwz. Preparing to unpack .../22-dwz_0.16-2_arm64.deb ... Unpacking dwz (0.16-2) ... Selecting previously unselected package libunistring5:arm64. Preparing to unpack .../23-libunistring5_1.3-2_arm64.deb ... Unpacking libunistring5:arm64 (1.3-2) ... Selecting previously unselected package libxml2-16:arm64. Preparing to unpack .../24-libxml2-16_2.14.6+dfsg-0.1_arm64.deb ... Unpacking libxml2-16:arm64 (2.14.6+dfsg-0.1) ... Selecting previously unselected package gettext. Preparing to unpack .../25-gettext_0.23.1-2+b1_arm64.deb ... Unpacking gettext (0.23.1-2+b1) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../26-intltool-debian_0.35.0+20060710.6_all.deb ... Unpacking intltool-debian (0.35.0+20060710.6) ... Selecting previously unselected package po-debconf. Preparing to unpack .../27-po-debconf_1.0.21+nmu1_all.deb ... Unpacking po-debconf (1.0.21+nmu1) ... Selecting previously unselected package debhelper. Preparing to unpack .../28-debhelper_13.28_all.deb ... Unpacking debhelper (13.28) ... Selecting previously unselected package libpkgconf3:arm64. Preparing to unpack .../29-libpkgconf3_1.8.1-4_arm64.deb ... Unpacking libpkgconf3:arm64 (1.8.1-4) ... Selecting previously unselected package pkgconf-bin. Preparing to unpack .../30-pkgconf-bin_1.8.1-4_arm64.deb ... Unpacking pkgconf-bin (1.8.1-4) ... Selecting previously unselected package pkgconf:arm64. Preparing to unpack .../31-pkgconf_1.8.1-4_arm64.deb ... Unpacking pkgconf:arm64 (1.8.1-4) ... Selecting previously unselected package zlib1g-dev:arm64. Preparing to unpack .../32-zlib1g-dev_1%3a1.3.dfsg+really1.3.1-1+b1_arm64.deb ... Unpacking zlib1g-dev:arm64 (1:1.3.dfsg+really1.3.1-1+b1) ... Setting up libpipeline1:arm64 (1.5.8-1) ... Setting up bsdextrautils (2.41.2-4) ... Setting up libmagic-mgc (1:5.46-5) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libxml2-16:arm64 (2.14.6+dfsg-0.1) ... Setting up libdebhelper-perl (13.28) ... Setting up libmagic1t64:arm64 (1:5.46-5) ... Setting up gettext-base (0.23.1-2+b1) ... Setting up m4 (1.4.20-2) ... Setting up file (1:5.46-5) ... Setting up libelf1t64:arm64 (0.193-3) ... Setting up autotools-dev (20240727.1) ... Setting up libpkgconf3:arm64 (1.8.1-4) ... Setting up libunistring5:arm64 (1.3-2) ... Setting up autopoint (0.23.1-2) ... Setting up pkgconf-bin (1.8.1-4) ... Setting up autoconf (2.72-3.1) ... Setting up zlib1g-dev:arm64 (1:1.3.dfsg+really1.3.1-1+b1) ... Setting up dwz (0.16-2) ... Setting up sensible-utils (0.0.26) ... Setting up libuchardet0:arm64 (0.0.8-2) ... Setting up automake (1:1.18.1-2) ... update-alternatives: using /usr/bin/automake-1.18 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.15.0-1) ... Setting up gettext (0.23.1-2+b1) ... Setting up libtool (2.5.4-7) ... Setting up pkgconf:arm64 (1.8.1-4) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (21) ... Setting up dh-strip-nondeterminism (1.15.0-1) ... Setting up groff-base (1.23.0-9) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up man-db (2.13.1-1) ... Not building database; man-db/auto-update is not 'true'. Setting up debhelper (13.28) ... Processing triggers for libc-bin (2.41-12) ... Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package I: user script /srv/workspace/pbuilder/2220918/tmp/hooks/A99_set_merged_usr starting Not re-configuring usrmerge for forky I: user script /srv/workspace/pbuilder/2220918/tmp/hooks/A99_set_merged_usr finished hostname: Name or service not known I: Running cd /build/reproducible-path/vcftools-0.1.17/ && 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 > ../vcftools_0.1.17-1_source.changes dpkg-buildpackage: info: source package vcftools dpkg-buildpackage: info: source version 0.1.17-1 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Dylan Aïssi dpkg-source --before-build . dpkg-buildpackage: info: host architecture arm64 debian/rules clean dh clean dh_clean rm -f debian/debhelper-build-stamp rm -rf debian/.debhelper/ rm -f -- debian/vcftools.substvars debian/files rm -fr -- debian/vcftools/ debian/tmp/ find . \( \( \ \( -path .\*/.git -o -path .\*/.svn -o -path .\*/.bzr -o -path .\*/.hg -o -path .\*/CVS -o -path .\*/.pc -o -path .\*/_darcs \) -prune -o -type f -a \ \( -name '#*#' -o -name '.*~' -o -name '*~' -o -name DEADJOE \ -o -name '*.orig' -o -name '*.rej' -o -name '*.bak' \ -o -name '.*.orig' -o -name .*.rej -o -name '.SUMS' \ -o -name TAGS -o \( -path '*/.deps/*' -a -name '*.P' \) \ \) -exec rm -f {} + \) -o \ \( -type d -a \( -name autom4te.cache -o -name __pycache__ \) -prune -exec rm -rf {} + \) \) debian/rules binary dh binary dh_update_autotools_config dh_autoreconf find ! -ipath "./debian/*" -a ! \( -path '*/.git/*' -o -path '*/.hg/*' -o -path '*/.bzr/*' -o -path '*/.svn/*' -o -path '*/CVS/*' \) -a -type f -exec md5sum {} + -o -type l -printf "symlink %p " > debian/autoreconf.before grep -q ^XDT_ configure.ac autoreconf -f -i configure.ac:16: installing './compile' configure.ac:12: installing './install-sh' configure.ac:12: installing './missing' src/cpp/Makefile.am: installing './depcomp' find ! -ipath "./debian/*" -a ! \( -path '*/.git/*' -o -path '*/.hg/*' -o -path '*/.bzr/*' -o -path '*/.svn/*' -o -path '*/CVS/*' \) -a -type f -exec md5sum {} + -o -type l -printf "symlink %p " > debian/autoreconf.after debian/rules override_dh_auto_configure make[1]: Entering directory '/build/reproducible-path/vcftools-0.1.17' dh_auto_configure -- --with-pmdir=/share/perl5 ./configure --build=aarch64-linux-gnu --prefix=/usr --includedir=\${prefix}/include --mandir=\${prefix}/share/man --infodir=\${prefix}/share/info --sysconfdir=/etc --localstatedir=/var --disable-option-checking --disable-silent-rules --libdir=\${prefix}/lib/aarch64-linux-gnu --runstatedir=/run --disable-maintainer-mode --disable-dependency-tracking --with-pmdir=/share/perl5 checking for a BSD-compatible install... /usr/bin/install -c checking whether sleep supports fractional seconds... yes checking filesystem timestamp resolution... 0.01 checking whether build environment is sane... yes checking for a race-free mkdir -p... /usr/bin/mkdir -p checking for gawk... no checking for mawk... mawk checking whether make sets $(MAKE)... yes checking whether make supports nested variables... yes checking xargs -n works... yes checking whether UID '2222' is supported by ustar format... yes checking whether GID '2222' is supported by ustar format... yes checking how to create a ustar tar archive... gnutar checking for g++... g++ checking whether the C++ compiler works... yes checking for C++ compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether the compiler supports GNU C++... yes checking whether g++ accepts -g... yes checking for g++ option to enable C++11 features... none needed checking whether make supports the include directive... yes (GNU style) checking dependency style of g++... none checking for gcc... gcc checking whether the compiler supports GNU C... yes checking whether gcc accepts -g... yes checking for gcc option to enable C11 features... none needed checking whether gcc understands -c and -o together... yes checking dependency style of gcc... none checking how to run the C preprocessor... gcc -E checking for perl... /usr/bin/perl checking for pkg-config... /usr/bin/pkg-config checking pkg-config is at least version 0.9.0... yes checking for zlib... yes checking for stdio.h... yes checking for stdlib.h... yes checking for string.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for strings.h... yes checking for sys/stat.h... yes checking for sys/types.h... yes checking for unistd.h... yes checking for arpa/inet.h... yes checking for fcntl.h... yes checking for limits.h... yes checking for netdb.h... yes checking for stdint.h... (cached) yes checking for stdlib.h... (cached) yes checking for string.h... (cached) yes checking for sys/socket.h... yes checking for unistd.h... (cached) yes checking for _Bool... yes checking for stdbool.h that conforms to C99 or later... yes checking for inline... inline checking for int16_t... yes checking for int32_t... yes checking for int64_t... yes checking for int8_t... yes checking for off_t... yes checking for size_t... yes checking for ssize_t... yes checking for uint16_t... yes checking for uint32_t... yes checking for uint8_t... yes checking for -Wdate-time -D_FORTIFY_SOURCE=2 option for large files... none needed checking for error_at_line... yes checking for gethostbyaddr... yes checking for gethostbyname... yes checking for malloc... yes checking for memset... yes checking for pow... no checking for realloc... yes checking for select... yes checking for socket... yes checking for sqrt... no checking for strchr... yes checking for strdup... yes checking for strerror... yes checking for strstr... yes checking for strtol... yes checking that generated files are newer than configure... done configure: creating ./config.status config.status: creating Makefile config.status: creating src/Makefile config.status: creating src/cpp/Makefile config.status: creating src/perl/Makefile config.status: creating config.h config.status: executing depfiles commands make[1]: Leaving directory '/build/reproducible-path/vcftools-0.1.17' dh_auto_build make -j12 make[1]: Entering directory '/build/reproducible-path/vcftools-0.1.17' make all-recursive make[2]: Entering directory '/build/reproducible-path/vcftools-0.1.17' Making all in src make[3]: Entering directory '/build/reproducible-path/vcftools-0.1.17/src' Making all in cpp make[4]: Entering directory '/build/reproducible-path/vcftools-0.1.17/src/cpp' g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-bcf_entry.o `test -f 'bcf_entry.cpp' || echo './'`bcf_entry.cpp g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-bcf_entry_setters.o `test -f 'bcf_entry_setters.cpp' || echo './'`bcf_entry_setters.cpp g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-bcf_file.o `test -f 'bcf_file.cpp' || echo './'`bcf_file.cpp gcc -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-bgzf.o `test -f 'bgzf.c' || echo './'`bgzf.c g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-dgeev.o `test -f 'dgeev.cpp' || echo './'`dgeev.cpp g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-entry.o `test -f 'entry.cpp' || echo './'`entry.cpp g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-entry_filters.o `test -f 'entry_filters.cpp' || echo './'`entry_filters.cpp g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-entry_getters.o `test -f 'entry_getters.cpp' || echo './'`entry_getters.cpp g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-entry_setters.o `test -f 'entry_setters.cpp' || echo './'`entry_setters.cpp g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-gamma.o `test -f 'gamma.cpp' || echo './'`gamma.cpp g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-header.o `test -f 'header.cpp' || echo './'`header.cpp gcc -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-knetfile.o `test -f 'knetfile.c' || echo './'`knetfile.c g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-output_log.o `test -f 'output_log.cpp' || echo './'`output_log.cpp bgzf.c: In function 'bgzf_check_EOF': bgzf.c:60:34: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 60 | #define _bgzf_read(fp, buf, len) fread((buf), 1, (len), (FILE*)(fp)) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ bgzf.c:622:9: note: in expansion of macro '_bgzf_read' 622 | _bgzf_read(fp->fp, buf, 28); | ^~~~~~~~~~ In file included from knetfile.c:46: knetfile.c: In function 'kftp_send_cmd': knetfile.h:9:32: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 9 | #define netwrite(fd, ptr, len) write(fd, ptr, len) | ^~~~~~~~~~~~~~~~~~~ knetfile.c:236:9: note: in expansion of macro 'netwrite' 236 | netwrite(ftp->ctrl_fd, cmd, strlen(cmd)); | ^~~~~~~~ knetfile.c: In function 'khttp_connect_file': knetfile.h:9:32: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 9 | #define netwrite(fd, ptr, len) write(fd, ptr, len) | ^~~~~~~~~~~~~~~~~~~ knetfile.c:415:9: note: in expansion of macro 'netwrite' 415 | netwrite(fp->fd, buf, l); | ^~~~~~~~ g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-parameters.o `test -f 'parameters.cpp' || echo './'`parameters.cpp g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-variant_file.o `test -f 'variant_file.cpp' || echo './'`variant_file.cpp g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-variant_file_diff.o `test -f 'variant_file_diff.cpp' || echo './'`variant_file_diff.cpp g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-variant_file_filters.o `test -f 'variant_file_filters.cpp' || echo './'`variant_file_filters.cpp g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-variant_file_format_convert.o `test -f 'variant_file_format_convert.cpp' || echo './'`variant_file_format_convert.cpp g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-variant_file_output.o `test -f 'variant_file_output.cpp' || echo './'`variant_file_output.cpp variant_file_filters.cpp: In member function 'void variant_file::filter_individuals_randomly(int)': variant_file_filters.cpp:129:23: warning: 'void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]' is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 129 | random_shuffle(keep_index.begin(), keep_index.end()); // Get a random order | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/15/algorithm:63, from variant_file.h:15, from variant_file_filters.cpp:7: /usr/include/c++/15/bits/stl_algo.h:4537:5: note: declared here 4537 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-vcf_entry.o `test -f 'vcf_entry.cpp' || echo './'`vcf_entry.cpp g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-vcf_entry_setters.o `test -f 'vcf_entry_setters.cpp' || echo './'`vcf_entry_setters.cpp In file included from /usr/include/c++/15/bits/stl_algobase.h:64, from /usr/include/c++/15/algorithm:62, from variant_file.h:15, from variant_file_output.cpp:8: /usr/include/c++/15/bits/stl_pair.h: In instantiation of 'constexpr std::pair::type>::__type, typename std::__strip_reference_wrapper::type>::__type> std::make_pair(_T1&&, _T2&&) [with _T1 = double&; _T2 = double&; typename __strip_reference_wrapper::type>::__type = double; typename decay<_Tp>::type = double; typename __strip_reference_wrapper::type>::__type = double; typename decay<_Tp2>::type = double]': variant_file_output.cpp:4496:39: required from here 4496 | p_emission[ui].push_back(make_pair(p_emission_given_auto, p_emission_given_nonauto)); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_pair.h:1164:5: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 1164 | make_pair(_T1&& __x, _T2&& __y) | ^~~~~~~~~ g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-vcf_file.o `test -f 'vcf_file.cpp' || echo './'`vcf_file.cpp g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-vcftools.o `test -f 'vcftools.cpp' || echo './'`vcftools.cpp g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wl,-z,relro -Wl,-z,now -o vcftools vcftools-bcf_entry.o vcftools-bcf_entry_setters.o vcftools-bcf_file.o vcftools-bgzf.o vcftools-dgeev.o vcftools-entry.o vcftools-entry_filters.o vcftools-entry_getters.o vcftools-entry_setters.o vcftools-gamma.o vcftools-header.o vcftools-knetfile.o vcftools-output_log.o vcftools-parameters.o vcftools-variant_file.o vcftools-variant_file_diff.o vcftools-variant_file_filters.o vcftools-variant_file_format_convert.o vcftools-variant_file_output.o vcftools-vcf_entry.o vcftools-vcf_entry_setters.o vcftools-vcf_file.o vcftools-vcftools.o -lz make[4]: Leaving directory '/build/reproducible-path/vcftools-0.1.17/src/cpp' Making all in perl make[4]: Entering directory '/build/reproducible-path/vcftools-0.1.17/src/perl' make[4]: Nothing to be done for 'all'. make[4]: Leaving directory '/build/reproducible-path/vcftools-0.1.17/src/perl' make[4]: Entering directory '/build/reproducible-path/vcftools-0.1.17/src' make[4]: Nothing to be done for 'all-am'. make[4]: Leaving directory '/build/reproducible-path/vcftools-0.1.17/src' make[3]: Leaving directory '/build/reproducible-path/vcftools-0.1.17/src' make[3]: Entering directory '/build/reproducible-path/vcftools-0.1.17' make[3]: Leaving directory '/build/reproducible-path/vcftools-0.1.17' make[2]: Leaving directory '/build/reproducible-path/vcftools-0.1.17' make[1]: Leaving directory '/build/reproducible-path/vcftools-0.1.17' dh_auto_test make -j12 check TESTSUITEFLAGS="-j12 --verbose" VERBOSE=1 make[1]: Entering directory '/build/reproducible-path/vcftools-0.1.17' Making check in src make[2]: Entering directory '/build/reproducible-path/vcftools-0.1.17/src' Making check in cpp make[3]: Entering directory '/build/reproducible-path/vcftools-0.1.17/src/cpp' make[3]: Nothing to be done for 'check'. make[3]: Leaving directory '/build/reproducible-path/vcftools-0.1.17/src/cpp' Making check in perl make[3]: Entering directory '/build/reproducible-path/vcftools-0.1.17/src/perl' make[3]: Nothing to be done for 'check'. make[3]: Leaving directory '/build/reproducible-path/vcftools-0.1.17/src/perl' make[3]: Entering directory '/build/reproducible-path/vcftools-0.1.17/src' make[3]: Nothing to be done for 'check-am'. make[3]: Leaving directory '/build/reproducible-path/vcftools-0.1.17/src' make[2]: Leaving directory '/build/reproducible-path/vcftools-0.1.17/src' make[2]: Entering directory '/build/reproducible-path/vcftools-0.1.17' make[2]: Leaving directory '/build/reproducible-path/vcftools-0.1.17' make[1]: Leaving directory '/build/reproducible-path/vcftools-0.1.17' rm -fr -- /tmp/dh-xdg-rundir-zvzyiQkh create-stamp debian/debhelper-build-stamp dh_prep rm -f -- debian/vcftools.substvars rm -fr -- debian/.debhelper/generated/vcftools/ debian/vcftools/ debian/tmp/ dh_auto_install --destdir=debian/vcftools/ install -m0755 -d /build/reproducible-path/vcftools-0.1.17/debian/vcftools make -j12 install DESTDIR=/build/reproducible-path/vcftools-0.1.17/debian/vcftools AM_UPDATE_INFO_DIR=no make[1]: Entering directory '/build/reproducible-path/vcftools-0.1.17' Making install in src make[2]: Entering directory '/build/reproducible-path/vcftools-0.1.17/src' Making install in cpp make[3]: Entering directory '/build/reproducible-path/vcftools-0.1.17/src/cpp' make[4]: Entering directory '/build/reproducible-path/vcftools-0.1.17/src/cpp' /usr/bin/mkdir -p '/build/reproducible-path/vcftools-0.1.17/debian/vcftools/usr/bin' /usr/bin/mkdir -p '/build/reproducible-path/vcftools-0.1.17/debian/vcftools/usr/share/man/man1' /usr/bin/install -c vcftools '/build/reproducible-path/vcftools-0.1.17/debian/vcftools/usr/bin' /usr/bin/install -c -m 644 vcftools.1 '/build/reproducible-path/vcftools-0.1.17/debian/vcftools/usr/share/man/man1' make[4]: Leaving directory '/build/reproducible-path/vcftools-0.1.17/src/cpp' make[3]: Leaving directory '/build/reproducible-path/vcftools-0.1.17/src/cpp' Making install in perl make[3]: Entering directory '/build/reproducible-path/vcftools-0.1.17/src/perl' make[4]: Entering directory '/build/reproducible-path/vcftools-0.1.17/src/perl' /usr/bin/mkdir -p '/build/reproducible-path/vcftools-0.1.17/debian/vcftools/usr//share/perl5' /usr/bin/mkdir -p '/build/reproducible-path/vcftools-0.1.17/debian/vcftools/usr/bin' /usr/bin/install -c -m 644 FaSlice.pm Vcf.pm VcfStats.pm '/build/reproducible-path/vcftools-0.1.17/debian/vcftools/usr//share/perl5' /usr/bin/install -c fill-aa fill-an-ac fill-fs fill-ref-md5 vcf-annotate vcf-compare vcf-concat vcf-consensus vcf-contrast vcf-convert vcf-fix-newlines vcf-fix-ploidy vcf-indel-stats vcf-isec vcf-merge vcf-phased-join vcf-query vcf-shuffle-cols vcf-sort vcf-stats vcf-subset vcf-to-tab vcf-tstv vcf-validator '/build/reproducible-path/vcftools-0.1.17/debian/vcftools/usr/bin' make[4]: Leaving directory '/build/reproducible-path/vcftools-0.1.17/src/perl' make[3]: Leaving directory '/build/reproducible-path/vcftools-0.1.17/src/perl' make[3]: Entering directory '/build/reproducible-path/vcftools-0.1.17/src' make[4]: Entering directory '/build/reproducible-path/vcftools-0.1.17/src' make[4]: Nothing to be done for 'install-exec-am'. make[4]: Nothing to be done for 'install-data-am'. make[4]: Leaving directory '/build/reproducible-path/vcftools-0.1.17/src' make[3]: Leaving directory '/build/reproducible-path/vcftools-0.1.17/src' make[2]: Leaving directory '/build/reproducible-path/vcftools-0.1.17/src' make[2]: Entering directory '/build/reproducible-path/vcftools-0.1.17' make[3]: Entering directory '/build/reproducible-path/vcftools-0.1.17' make[3]: Nothing to be done for 'install-exec-am'. make[3]: Nothing to be done for 'install-data-am'. make[3]: Leaving directory '/build/reproducible-path/vcftools-0.1.17' make[2]: Leaving directory '/build/reproducible-path/vcftools-0.1.17' make[1]: Leaving directory '/build/reproducible-path/vcftools-0.1.17' rm -f debian/vcftools.debhelper.log debian/rules override_dh_install make[1]: Entering directory '/build/reproducible-path/vcftools-0.1.17' dh_install for perlscript in `grep -l '#!/usr/bin/env \+perl' debian/*/usr/bin/*` ; do \ sed -i '1s+#!/usr/bin/env perl+#!/usr/bin/perl+' ${perlscript} ; \ done make[1]: Leaving directory '/build/reproducible-path/vcftools-0.1.17' dh_installdocs install -m0755 -d debian/vcftools/usr/share/doc/vcftools install -m0755 -d debian/vcftools/usr/share/doc/vcftools cp --reflink=auto -a ./debian/README.test debian/vcftools/usr/share/doc/vcftools cp --reflink=auto -a ./debian/tests/run-unit-test debian/vcftools/usr/share/doc/vcftools chmod -R u\+rw,go=rX debian/vcftools/usr/share/doc install -p -m0644 debian/copyright debian/vcftools/usr/share/doc/vcftools/copyright rm -f debian/vcftools.debhelper.log debian/rules override_dh_installchangelogs make[1]: Entering directory '/build/reproducible-path/vcftools-0.1.17' dh_installchangelogs src/perl/ChangeLog install -m0755 -d debian/vcftools/usr/share/doc/vcftools install -p -m0644 debian/.debhelper/generated/vcftools/dh_installchangelogs.dch.trimmed debian/vcftools/usr/share/doc/vcftools/changelog.Debian install -p -m0644 src/perl/ChangeLog debian/vcftools/usr/share/doc/vcftools/changelog make[1]: Leaving directory '/build/reproducible-path/vcftools-0.1.17' rm -f debian/vcftools.debhelper.log debian/rules override_dh_installexamples make[1]: Entering directory '/build/reproducible-path/vcftools-0.1.17' dh_installexamples; mkdir -p /build/reproducible-path/vcftools-0.1.17/debian/vcftools/usr/share/doc/vcftools/examples/testsuite; mkdir -p /build/reproducible-path/vcftools-0.1.17/debian/vcftools/usr/share/doc/vcftools/examples/testdata; cp ./examples/* /build/reproducible-path/vcftools-0.1.17/debian/vcftools/usr/share/doc/vcftools/examples/testdata/; find ./src/perl/ \( -name "*.pm" -o -name "*fill*" -o -name "test.t" \) -exec cp \{\} /build/reproducible-path/vcftools-0.1.17/debian/vcftools/usr/share/doc/vcftools/examples/testsuite \; sed -i 's#examples#testdata#g' /build/reproducible-path/vcftools-0.1.17/debian/vcftools/usr/share/doc/vcftools/examples/testsuite/test.t; sed -i 's#I\.\./perl/#I\.\./\.#g' /build/reproducible-path/vcftools-0.1.17/debian/vcftools/usr/share/doc/vcftools/examples/testsuite/test.t; sed -i 's#\.\./perl/#/usr/bin/#g' /build/reproducible-path/vcftools-0.1.17/debian/vcftools/usr/share/doc/vcftools/examples/testsuite/test.t; for perlscript in `grep -lR '#!/usr/bin/env \+perl' debian/*/usr/share/doc/vcftools/examples` ; do \ sed -i '1s+#!/usr/bin/env perl+#!/usr/bin/perl+' ${perlscript} ; \ done make[1]: Leaving directory '/build/reproducible-path/vcftools-0.1.17' dh_installman install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./debian/mans/fill-aa.1 debian/vcftools/usr/share/man/man1/fill-aa.1 install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./debian/mans/fill-an-ac.1 debian/vcftools/usr/share/man/man1/fill-an-ac.1 install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./debian/mans/fill-fs.1 debian/vcftools/usr/share/man/man1/fill-fs.1 install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./debian/mans/fill-ref-md5.1 debian/vcftools/usr/share/man/man1/fill-ref-md5.1 install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./debian/mans/fill-rsIDs.1 debian/vcftools/usr/share/man/man1/fill-rsIDs.1 install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./debian/mans/vcf-annotate.1 debian/vcftools/usr/share/man/man1/vcf-annotate.1 install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./debian/mans/vcf-compare.1 debian/vcftools/usr/share/man/man1/vcf-compare.1 install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./debian/mans/vcf-concat.1 debian/vcftools/usr/share/man/man1/vcf-concat.1 install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./debian/mans/vcf-consensus.1 debian/vcftools/usr/share/man/man1/vcf-consensus.1 install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./debian/mans/vcf-contrast.1 debian/vcftools/usr/share/man/man1/vcf-contrast.1 install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./debian/mans/vcf-convert.1 debian/vcftools/usr/share/man/man1/vcf-convert.1 install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./debian/mans/vcf-fix-newlines.1 debian/vcftools/usr/share/man/man1/vcf-fix-newlines.1 install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./debian/mans/vcf-fix-ploidy.1 debian/vcftools/usr/share/man/man1/vcf-fix-ploidy.1 install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./debian/mans/vcf-indel-stats.1 debian/vcftools/usr/share/man/man1/vcf-indel-stats.1 install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./debian/mans/vcf-isec.1 debian/vcftools/usr/share/man/man1/vcf-isec.1 install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./debian/mans/vcf-merge.1 debian/vcftools/usr/share/man/man1/vcf-merge.1 install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./debian/mans/vcf-phased-join.1 debian/vcftools/usr/share/man/man1/vcf-phased-join.1 install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./debian/mans/vcf-query.1 debian/vcftools/usr/share/man/man1/vcf-query.1 install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./debian/mans/vcf-shuffle-cols.1 debian/vcftools/usr/share/man/man1/vcf-shuffle-cols.1 install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./debian/mans/vcf-sort.1 debian/vcftools/usr/share/man/man1/vcf-sort.1 install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./debian/mans/vcf-stats.1 debian/vcftools/usr/share/man/man1/vcf-stats.1 install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./debian/mans/vcf-subset.1 debian/vcftools/usr/share/man/man1/vcf-subset.1 install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./debian/mans/vcf-to-tab.1 debian/vcftools/usr/share/man/man1/vcf-to-tab.1 install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./debian/mans/vcf-tstv.1 debian/vcftools/usr/share/man/man1/vcf-tstv.1 install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./debian/mans/vcf-validator.1 debian/vcftools/usr/share/man/man1/vcf-validator.1 install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./src/cpp/vcftools.1 debian/vcftools/usr/share/man/man1/vcftools.1 man-recode --to-code UTF-8 --suffix .dh-new debian/vcftools/usr/share/man/man1/fill-aa.1 debian/vcftools/usr/share/man/man1/fill-an-ac.1 debian/vcftools/usr/share/man/man1/fill-fs.1 man-recode --to-code UTF-8 --suffix .dh-new debian/vcftools/usr/share/man/man1/fill-ref-md5.1 debian/vcftools/usr/share/man/man1/fill-rsIDs.1 debian/vcftools/usr/share/man/man1/vcf-annotate.1 man-recode --to-code UTF-8 --suffix .dh-new debian/vcftools/usr/share/man/man1/vcf-compare.1 debian/vcftools/usr/share/man/man1/vcf-concat.1 debian/vcftools/usr/share/man/man1/vcf-consensus.1 man-recode --to-code UTF-8 --suffix .dh-new debian/vcftools/usr/share/man/man1/vcf-contrast.1 debian/vcftools/usr/share/man/man1/vcf-convert.1 debian/vcftools/usr/share/man/man1/vcf-fix-newlines.1 man-recode --to-code UTF-8 --suffix .dh-new debian/vcftools/usr/share/man/man1/vcf-fix-ploidy.1 debian/vcftools/usr/share/man/man1/vcf-indel-stats.1 debian/vcftools/usr/share/man/man1/vcf-isec.1 man-recode --to-code UTF-8 --suffix .dh-new debian/vcftools/usr/share/man/man1/vcf-shuffle-cols.1 debian/vcftools/usr/share/man/man1/vcf-sort.1 debian/vcftools/usr/share/man/man1/vcf-stats.1 man-recode --to-code UTF-8 --suffix .dh-new debian/vcftools/usr/share/man/man1/vcf-merge.1 debian/vcftools/usr/share/man/man1/vcf-phased-join.1 debian/vcftools/usr/share/man/man1/vcf-query.1 man-recode --to-code UTF-8 --suffix .dh-new debian/vcftools/usr/share/man/man1/vcf-validator.1 debian/vcftools/usr/share/man/man1/vcftools.1 man-recode --to-code UTF-8 --suffix .dh-new debian/vcftools/usr/share/man/man1/vcf-subset.1 debian/vcftools/usr/share/man/man1/vcf-to-tab.1 debian/vcftools/usr/share/man/man1/vcf-tstv.1 mv debian/vcftools/usr/share/man/man1/vcf-validator.1.dh-new debian/vcftools/usr/share/man/man1/vcf-validator.1 mv debian/vcftools/usr/share/man/man1/vcftools.1.dh-new debian/vcftools/usr/share/man/man1/vcftools.1 chmod 0644 -- debian/vcftools/usr/share/man/man1/vcf-validator.1 debian/vcftools/usr/share/man/man1/vcftools.1 mv debian/vcftools/usr/share/man/man1/vcf-contrast.1.dh-new debian/vcftools/usr/share/man/man1/vcf-contrast.1 mv debian/vcftools/usr/share/man/man1/vcf-convert.1.dh-new debian/vcftools/usr/share/man/man1/vcf-convert.1 mv debian/vcftools/usr/share/man/man1/vcf-fix-newlines.1.dh-new debian/vcftools/usr/share/man/man1/vcf-fix-newlines.1 chmod 0644 -- debian/vcftools/usr/share/man/man1/vcf-contrast.1 debian/vcftools/usr/share/man/man1/vcf-convert.1 debian/vcftools/usr/share/man/man1/vcf-fix-newlines.1 mv debian/vcftools/usr/share/man/man1/vcf-fix-ploidy.1.dh-new debian/vcftools/usr/share/man/man1/vcf-fix-ploidy.1 mv debian/vcftools/usr/share/man/man1/vcf-indel-stats.1.dh-new debian/vcftools/usr/share/man/man1/vcf-indel-stats.1 mv debian/vcftools/usr/share/man/man1/vcf-isec.1.dh-new debian/vcftools/usr/share/man/man1/vcf-isec.1 chmod 0644 -- debian/vcftools/usr/share/man/man1/vcf-fix-ploidy.1 debian/vcftools/usr/share/man/man1/vcf-indel-stats.1 debian/vcftools/usr/share/man/man1/vcf-isec.1 mv debian/vcftools/usr/share/man/man1/vcf-subset.1.dh-new debian/vcftools/usr/share/man/man1/vcf-subset.1 mv debian/vcftools/usr/share/man/man1/vcf-to-tab.1.dh-new debian/vcftools/usr/share/man/man1/vcf-to-tab.1 mv debian/vcftools/usr/share/man/man1/vcf-tstv.1.dh-new debian/vcftools/usr/share/man/man1/vcf-tstv.1 chmod 0644 -- debian/vcftools/usr/share/man/man1/vcf-subset.1 debian/vcftools/usr/share/man/man1/vcf-to-tab.1 debian/vcftools/usr/share/man/man1/vcf-tstv.1 mv debian/vcftools/usr/share/man/man1/fill-aa.1.dh-new debian/vcftools/usr/share/man/man1/fill-aa.1 mv debian/vcftools/usr/share/man/man1/fill-an-ac.1.dh-new debian/vcftools/usr/share/man/man1/fill-an-ac.1 mv debian/vcftools/usr/share/man/man1/fill-fs.1.dh-new debian/vcftools/usr/share/man/man1/fill-fs.1 chmod 0644 -- debian/vcftools/usr/share/man/man1/fill-aa.1 debian/vcftools/usr/share/man/man1/fill-an-ac.1 debian/vcftools/usr/share/man/man1/fill-fs.1 mv debian/vcftools/usr/share/man/man1/vcf-shuffle-cols.1.dh-new debian/vcftools/usr/share/man/man1/vcf-shuffle-cols.1 mv debian/vcftools/usr/share/man/man1/vcf-sort.1.dh-new debian/vcftools/usr/share/man/man1/vcf-sort.1 mv debian/vcftools/usr/share/man/man1/vcf-stats.1.dh-new debian/vcftools/usr/share/man/man1/vcf-stats.1 chmod 0644 -- debian/vcftools/usr/share/man/man1/vcf-shuffle-cols.1 debian/vcftools/usr/share/man/man1/vcf-sort.1 debian/vcftools/usr/share/man/man1/vcf-stats.1 mv debian/vcftools/usr/share/man/man1/vcf-merge.1.dh-new debian/vcftools/usr/share/man/man1/vcf-merge.1 mv debian/vcftools/usr/share/man/man1/vcf-phased-join.1.dh-new debian/vcftools/usr/share/man/man1/vcf-phased-join.1 mv debian/vcftools/usr/share/man/man1/vcf-query.1.dh-new debian/vcftools/usr/share/man/man1/vcf-query.1 chmod 0644 -- debian/vcftools/usr/share/man/man1/vcf-merge.1 debian/vcftools/usr/share/man/man1/vcf-phased-join.1 debian/vcftools/usr/share/man/man1/vcf-query.1 mv debian/vcftools/usr/share/man/man1/vcf-compare.1.dh-new debian/vcftools/usr/share/man/man1/vcf-compare.1 mv debian/vcftools/usr/share/man/man1/vcf-concat.1.dh-new debian/vcftools/usr/share/man/man1/vcf-concat.1 mv debian/vcftools/usr/share/man/man1/vcf-consensus.1.dh-new debian/vcftools/usr/share/man/man1/vcf-consensus.1 chmod 0644 -- debian/vcftools/usr/share/man/man1/vcf-compare.1 debian/vcftools/usr/share/man/man1/vcf-concat.1 debian/vcftools/usr/share/man/man1/vcf-consensus.1 mv debian/vcftools/usr/share/man/man1/fill-ref-md5.1.dh-new debian/vcftools/usr/share/man/man1/fill-ref-md5.1 mv debian/vcftools/usr/share/man/man1/fill-rsIDs.1.dh-new debian/vcftools/usr/share/man/man1/fill-rsIDs.1 mv debian/vcftools/usr/share/man/man1/vcf-annotate.1.dh-new debian/vcftools/usr/share/man/man1/vcf-annotate.1 chmod 0644 -- debian/vcftools/usr/share/man/man1/fill-ref-md5.1 debian/vcftools/usr/share/man/man1/fill-rsIDs.1 debian/vcftools/usr/share/man/man1/vcf-annotate.1 dh_perl mv debian/vcftools.substvars.new debian/vcftools.substvars rmdir --ignore-fail-on-non-empty --parents debian/vcftools/usr/share/perl5 dh_link dh_strip_nondeterminism dh_compress cd debian/vcftools chmod a-x usr/share/doc/vcftools/changelog usr/share/doc/vcftools/changelog.Debian usr/share/man/man1/fill-aa.1 usr/share/man/man1/fill-an-ac.1 usr/share/man/man1/fill-fs.1 usr/share/man/man1/fill-ref-md5.1 usr/share/man/man1/fill-rsIDs.1 usr/share/man/man1/vcf-annotate.1 usr/share/man/man1/vcf-compare.1 usr/share/man/man1/vcf-concat.1 usr/share/man/man1/vcf-consensus.1 usr/share/man/man1/vcf-contrast.1 usr/share/man/man1/vcf-convert.1 usr/share/man/man1/vcf-fix-newlines.1 usr/share/man/man1/vcf-fix-ploidy.1 usr/share/man/man1/vcf-indel-stats.1 usr/share/man/man1/vcf-isec.1 usr/share/man/man1/vcf-merge.1 usr/share/man/man1/vcf-phased-join.1 usr/share/man/man1/vcf-query.1 usr/share/man/man1/vcf-shuffle-cols.1 usr/share/man/man1/vcf-sort.1 usr/share/man/man1/vcf-stats.1 usr/share/man/man1/vcf-subset.1 usr/share/man/man1/vcf-to-tab.1 usr/share/man/man1/vcf-tstv.1 usr/share/man/man1/vcf-validator.1 usr/share/man/man1/vcftools.1 gzip -9nf usr/share/doc/vcftools/changelog usr/share/doc/vcftools/changelog.Debian usr/share/man/man1/fill-aa.1 usr/share/man/man1/fill-an-ac.1 usr/share/man/man1/fill-fs.1 usr/share/man/man1/fill-ref-md5.1 usr/share/man/man1/fill-rsIDs.1 usr/share/man/man1/vcf-annotate.1 usr/share/man/man1/vcf-compare.1 usr/share/man/man1/vcf-concat.1 usr/share/man/man1/vcf-consensus.1 usr/share/man/man1/vcf-contrast.1 usr/share/man/man1/vcf-convert.1 usr/share/man/man1/vcf-fix-newlines.1 usr/share/man/man1/vcf-fix-ploidy.1 usr/share/man/man1/vcf-indel-stats.1 usr/share/man/man1/vcf-isec.1 usr/share/man/man1/vcf-merge.1 usr/share/man/man1/vcf-phased-join.1 usr/share/man/man1/vcf-query.1 usr/share/man/man1/vcf-shuffle-cols.1 usr/share/man/man1/vcf-sort.1 usr/share/man/man1/vcf-stats.1 usr/share/man/man1/vcf-subset.1 usr/share/man/man1/vcf-to-tab.1 usr/share/man/man1/vcf-tstv.1 usr/share/man/man1/vcf-validator.1 usr/share/man/man1/vcftools.1 cd '/build/reproducible-path/vcftools-0.1.17' dh_fixperms find debian/vcftools ! -type l -a -true -a -true -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s find debian/vcftools/usr/share/doc -type f -a -true -a ! -regex 'debian/vcftools/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644 find debian/vcftools/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 find debian/vcftools/usr/share/man -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/vcftools/usr/share/perl5 -type f -perm -5 -name '*.pm' -a -true -a -true -print0 2>/dev/null | xargs -0r chmod a-X find debian/vcftools -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/vcftools/usr/bin -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod a+x dh_missing dh_dwz -a dwz -- debian/vcftools/usr/bin/vcftools dh_strip -a install -m0755 -d debian/.debhelper/vcftools/dbgsym-root/usr/lib/debug/.build-id/86 objcopy --only-keep-debug --compress-debug-sections debian/vcftools/usr/bin/vcftools debian/.debhelper/vcftools/dbgsym-root/usr/lib/debug/.build-id/86/17d71233c83b12875e1f5abd8648822d77215c.debug chmod 0644 -- debian/.debhelper/vcftools/dbgsym-root/usr/lib/debug/.build-id/86/17d71233c83b12875e1f5abd8648822d77215c.debug strip --remove-section=.comment --remove-section=.note debian/vcftools/usr/bin/vcftools objcopy --add-gnu-debuglink debian/.debhelper/vcftools/dbgsym-root/usr/lib/debug/.build-id/86/17d71233c83b12875e1f5abd8648822d77215c.debug debian/vcftools/usr/bin/vcftools install -m0755 -d debian/.debhelper/vcftools/dbgsym-root/usr/share/doc ln -s vcftools debian/.debhelper/vcftools/dbgsym-root/usr/share/doc/vcftools-dbgsym install -m0755 -d debian/.debhelper/vcftools dh_makeshlibs -a rm -f debian/vcftools/DEBIAN/shlibs dh_shlibdeps -a install -m0755 -d debian/vcftools/DEBIAN dpkg-shlibdeps -Tdebian/vcftools.substvars debian/vcftools/usr/bin/vcftools dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 from: /lib/ld-linux-aarch64.so.1 dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 to: /lib/ld-linux-aarch64.so.1.usr-is-merged dh_installdeb install -m0755 -d debian/vcftools/DEBIAN dh_gencontrol install -m0755 -d debian/vcftools/DEBIAN echo misc:Depends= >> debian/vcftools.substvars echo misc:Pre-Depends= >> debian/vcftools.substvars install -m0755 -d debian/.debhelper/vcftools/dbgsym-root/DEBIAN dpkg-gencontrol -pvcftools -ldebian/changelog -Tdebian/vcftools.substvars -cdebian/control -Pdebian/.debhelper/vcftools/dbgsym-root -UPre-Depends -URecommends -USuggests -UEnhances -UProvides -UEssential -UConflicts -DPriority=optional -UHomepage -UImportant -DAuto-Built-Package=debug-symbols -UProtected -UBuilt-Using -UStatic-Built-Using -DPackage=vcftools-dbgsym -DDepends="vcftools (= \${binary:Version})" -DDescription="debug symbols for vcftools" -DBuild-Ids=8617d71233c83b12875e1f5abd8648822d77215c -DSection=debug -UMulti-Arch -UReplaces -UBreaks chmod 0644 -- debian/.debhelper/vcftools/dbgsym-root/DEBIAN/control dpkg-gencontrol -pvcftools -ldebian/changelog -Tdebian/vcftools.substvars -cdebian/control -Pdebian/vcftools chmod 0644 -- debian/vcftools/DEBIAN/control dh_md5sums install -m0755 -d debian/vcftools/DEBIAN cd debian/vcftools >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums chmod 0644 -- debian/vcftools/DEBIAN/md5sums install -m0755 -d debian/.debhelper/vcftools/dbgsym-root/DEBIAN cd debian/.debhelper/vcftools/dbgsym-root >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums chmod 0644 -- debian/.debhelper/vcftools/dbgsym-root/DEBIAN/md5sums dh_builddeb dpkg-deb --root-owner-group --build debian/vcftools .. dpkg-deb --root-owner-group --build debian/.debhelper/vcftools/dbgsym-root .. dpkg-deb: building package 'vcftools-dbgsym' in '../vcftools-dbgsym_0.1.17-1_arm64.deb'. dpkg-deb: building package 'vcftools' in '../vcftools_0.1.17-1_arm64.deb'. dpkg-genbuildinfo --build=binary -O../vcftools_0.1.17-1_arm64.buildinfo dpkg-genchanges --build=binary -O../vcftools_0.1.17-1_arm64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . 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/2220918/tmp/hooks/B01_cleanup starting I: user script /srv/workspace/pbuilder/2220918/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/2220918 and its subdirectories I: Current time: Fri Oct 31 12:47:05 +14 2025 I: pbuilder-time-stamp: 1761864425 + false + set +x Thu Oct 30 22:47:05 UTC 2025 I: Signing ./b2/vcftools_0.1.17-1_arm64.buildinfo as vcftools_0.1.17-1_arm64.buildinfo.asc Thu Oct 30 22:47:05 UTC 2025 I: Signed ./b2/vcftools_0.1.17-1_arm64.buildinfo as ./b2/vcftools_0.1.17-1_arm64.buildinfo.asc Thu Oct 30 22:47:05 UTC 2025 - build #2 for vcftools/forky/arm64 on codethink04-arm64 done. Starting cleanup. All cleanup done. Thu Oct 30 22:47:05 UTC 2025 - reproducible_build.sh stopped running as /tmp/jenkins-script-uku0fwqR, removing. /srv/reproducible-results/rbuild-debian/r-b-build.7IOTWDbZ: total 344 drwxrwxr-x 2 jenkins jenkins 4096 Oct 30 22:45 b1 drwxrwxr-x 2 jenkins jenkins 4096 Oct 30 22:47 b2 -rw------- 1 jenkins jenkins 335073 Oct 30 22:45 rbuildlog.EANOn1A -rw-rw-r-- 1 jenkins jenkins 2043 Aug 22 06:31 vcftools_0.1.17-1.dsc /srv/reproducible-results/rbuild-debian/r-b-build.7IOTWDbZ/b1: total 6240 -rw-r--r-- 1 jenkins jenkins 331613 Oct 30 22:45 build.log -rw-r--r-- 1 jenkins jenkins 5320980 Oct 30 22:45 vcftools-dbgsym_0.1.17-1_arm64.deb -rw-r--r-- 1 jenkins jenkins 13976 Oct 30 22:45 vcftools_0.1.17-1.debian.tar.xz -rw-r--r-- 1 jenkins jenkins 2043 Oct 30 22:45 vcftools_0.1.17-1.dsc -rw-r--r-- 1 jenkins jenkins 4874 Oct 30 22:45 vcftools_0.1.17-1_arm64.buildinfo -rw-rw-r-- 1 jenkins jenkins 5756 Oct 30 22:45 vcftools_0.1.17-1_arm64.buildinfo.asc -rw-r--r-- 1 jenkins jenkins 1509 Oct 30 22:45 vcftools_0.1.17-1_arm64.changes -rw-r--r-- 1 jenkins jenkins 413128 Oct 30 22:45 vcftools_0.1.17-1_arm64.deb -rw-r--r-- 1 jenkins jenkins 1634 Oct 30 22:45 vcftools_0.1.17-1_source.changes -rw-r--r-- 1 jenkins jenkins 247685 Oct 30 22:45 vcftools_0.1.17.orig.tar.gz /srv/reproducible-results/rbuild-debian/r-b-build.7IOTWDbZ/b2: total 5956 -rw-rw-r-- 1 jenkins jenkins 62129 Oct 30 22:47 build.log -rw-r--r-- 1 jenkins jenkins 5320980 Oct 30 22:47 vcftools-dbgsym_0.1.17-1_arm64.deb -rw-r--r-- 1 jenkins jenkins 13976 Oct 30 22:47 vcftools_0.1.17-1.debian.tar.xz -rw-r--r-- 1 jenkins jenkins 2043 Oct 30 22:47 vcftools_0.1.17-1.dsc -rw-rw-r-- 1 jenkins jenkins 4874 Oct 30 22:47 vcftools_0.1.17-1_arm64.buildinfo -rw-rw-r-- 1 jenkins jenkins 5756 Oct 30 22:47 vcftools_0.1.17-1_arm64.buildinfo.asc -rw-rw-r-- 1 jenkins jenkins 1509 Oct 30 22:47 vcftools_0.1.17-1_arm64.changes -rw-r--r-- 1 jenkins jenkins 413128 Oct 30 22:47 vcftools_0.1.17-1_arm64.deb -rw-rw-r-- 1 jenkins jenkins 1634 Oct 30 22:47 vcftools_0.1.17-1_source.changes -rw-r--r-- 1 jenkins jenkins 247685 Oct 30 22:47 vcftools_0.1.17.orig.tar.gz Thu Oct 30 22:47:07 UTC 2025 I: Deleting $TMPDIR on codethink04-arm64.debian.net. Thu Oct 30 22:47:07 UTC 2025 I: vcftools_0.1.17-1_arm64.changes: Format: 1.8 Date: Fri, 22 Aug 2025 08:15:21 +0200 Source: vcftools Binary: vcftools vcftools-dbgsym Architecture: arm64 Version: 0.1.17-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Dylan Aïssi Description: vcftools - Collection of tools to work with VCF files Changes: vcftools (0.1.17-1) unstable; urgency=medium . * Team upload. * New upstream version * Standards-Version: 4.7.2 (routine-update) * Replace transitional package pkg-config by pkgconf in Build-Depends (routine-update) * Refresh patches Checksums-Sha1: a1658dc7d916eb09707cf217189766e42c1a8834 5320980 vcftools-dbgsym_0.1.17-1_arm64.deb 5c6d6d2dbcbbe29b2e51920758d0e2e96aea81d4 4874 vcftools_0.1.17-1_arm64.buildinfo 5472134848a91694459f501c519ba490adb14da8 413128 vcftools_0.1.17-1_arm64.deb Checksums-Sha256: ce1f462f9d95a46895861fc1ea4f3d5a6ca0cceec7d61d6c2b0909661b7eaed3 5320980 vcftools-dbgsym_0.1.17-1_arm64.deb 2706e0bd6e27d94cf0f26d7ed7ae6ec72746baed42e21db10f50bde1b826b384 4874 vcftools_0.1.17-1_arm64.buildinfo c4d499d8179d16bddb43cb96e6b623097db1261152275c4a18672c0a4e345939 413128 vcftools_0.1.17-1_arm64.deb Files: faccd02a7f1fda46eca299f8534ae2cd 5320980 debug optional vcftools-dbgsym_0.1.17-1_arm64.deb 3d5782d425a964d7b41dec37203e82a1 4874 science optional vcftools_0.1.17-1_arm64.buildinfo 84543d1aa8eddc056fdef827575b9bc6 413128 science optional vcftools_0.1.17-1_arm64.deb removed '/var/lib/jenkins/userContent/reproducible/debian/rbuild/forky/arm64/vcftools_0.1.17-1.rbuild.log' removed '/var/lib/jenkins/userContent/reproducible/debian/rbuild/forky/arm64/vcftools_0.1.17-1.rbuild.log.gz' removed '/var/lib/jenkins/userContent/reproducible/debian/logs/forky/arm64/vcftools_0.1.17-1.build1.log.gz' removed '/var/lib/jenkins/userContent/reproducible/debian/logs/forky/arm64/vcftools_0.1.17-1.build2.log.gz' removed '/var/lib/jenkins/userContent/reproducible/debian/buildinfo/forky/arm64/vcftools_0.1.17-1_arm64.buildinfo' removed '/var/lib/jenkins/userContent/reproducible/debian/logdiffs/forky/arm64/vcftools_0.1.17-1.diff.gz' Diff of the two buildlogs: -- --- b1/build.log 2025-10-30 22:45:47.837965126 +0000 +++ b2/build.log 2025-10-30 22:47:06.582059540 +0000 @@ -1,2545 +1,8 @@ I: pbuilder: network access will be disabled during build -I: Current time: Thu Oct 30 10:44:37 -12 2025 -I: pbuilder-time-stamp: 1761864277 +I: Current time: Fri Oct 31 12:45:50 +14 2025 +I: pbuilder-time-stamp: 1761864350 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/forky-reproducible-base.tgz] -tar: ./build: time stamp 2026-11-30 05:47:35 is 34196577.15942707 s in the future -tar: ./dev/ptmx: time stamp 2026-11-30 05:47:21 is 34196563.15879655 s in the future -tar: ./dev/pts: time stamp 2026-11-30 05:47:21 is 34196563.15878131 s in the future -tar: ./dev/console: time stamp 2026-11-30 05:47:21 is 34196563.15877279 s in the future -tar: ./dev/tty: time stamp 2026-11-30 05:47:21 is 34196563.15876447 s in the future -tar: ./dev/urandom: time stamp 2026-11-30 05:47:21 is 34196563.15875503 s in the future -tar: ./dev/random: time stamp 2026-11-30 05:47:21 is 34196563.15874643 s in the future -tar: ./dev/full: time stamp 2026-11-30 05:47:21 is 34196563.15873743 s in the future -tar: ./dev/zero: time stamp 2026-11-30 05:47:21 is 34196563.15872911 s in the future -tar: ./dev/null: time stamp 2026-11-30 05:47:21 is 34196563.15872079 s in the future -tar: ./etc/group: time stamp 2026-11-30 05:47:39 is 34196581.15859363 s in the future -tar: ./etc/group-: time stamp 2026-11-30 05:47:21 is 34196563.15858119 s in the future -tar: ./etc/gshadow: time stamp 2026-11-30 05:47:39 is 34196581.15854543 s in the future -tar: ./etc/passwd: time stamp 2026-11-30 05:47:39 is 34196581.15852051 s in the future -tar: ./etc/passwd-: time stamp 2026-11-30 05:47:21 is 34196563.15850243 s in the future -tar: ./etc/shadow: time stamp 2026-11-30 05:47:39 is 34196581.15848247 s in the future -tar: ./etc/.pwd.lock: time stamp 2026-11-30 05:47:39 is 34196581.15846763 s in the future -tar: ./etc/selinux: time stamp 2026-11-30 05:47:38 is 34196580.15844467 s in the future -tar: ./etc/perl/Net: time stamp 2026-11-30 05:47:35 is 34196577.15839655 s in the future -tar: ./etc/perl: time stamp 2026-11-30 05:47:34 is 34196576.15839127 s in the future -tar: ./etc/kernel: time stamp 2026-11-30 05:47:26 is 34196568.15837195 s in the future -tar: ./etc/environment: time stamp 2026-11-30 05:47:26 is 34196568.15836047 s in the future -tar: ./etc/shells: time stamp 2026-11-30 05:47:25 is 34196567.15833815 s in the future -tar: ./etc/opt: time stamp 2026-11-30 05:47:21 is 34196563.15832847 s in the future -tar: ./etc/subgid: time stamp 2026-11-30 05:47:21 is 34196563.15829819 s in the future -tar: ./etc/subuid: time stamp 2026-11-30 05:47:21 is 34196563.15828903 s in the future -tar: ./etc/fstab: time stamp 2026-11-30 05:47:21 is 34196563.15827711 s in the future -tar: ./etc/terminfo: time stamp 2026-11-30 05:47:25 is 34196567.15825871 s in the future -tar: ./etc/pam.d/common-session-noninteractive: time stamp 2026-11-30 05:47:26 is 34196568.15810423 s in the future -tar: ./etc/pam.d/common-session: time stamp 2026-11-30 05:47:26 is 34196568.15771895 s in the future -tar: ./etc/pam.d/common-password: time stamp 2026-11-30 05:47:26 is 34196568.15769855 s in the future -tar: ./etc/pam.d/common-account: time stamp 2026-11-30 05:47:26 is 34196568.15768515 s in the future -tar: ./etc/pam.d/common-auth: time stamp 2026-11-30 05:47:26 is 34196568.15767379 s in the future -tar: ./etc/pam.d: time stamp 2026-12-01 16:41:49 is 34322231.15761655 s in the future -tar: ./etc/security/opasswd: time stamp 2026-11-30 05:47:26 is 34196568.15759135 s in the future -tar: ./etc/security: time stamp 2026-11-30 05:47:26 is 34196568.15746667 s in the future -tar: ./etc/ld.so.conf.d: time stamp 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the future -tar: ./usr/include/linux/nfsd: time stamp 2026-11-30 05:47:34 is 34196571.56255743 s in the future -tar: ./usr/include/linux/netfilter_ipv6: time stamp 2026-11-30 05:47:34 is 34196571.56198931 s in the future -tar: ./usr/include/linux/netfilter_ipv4: time stamp 2026-11-30 05:47:34 is 34196571.56163695 s in the future -tar: ./usr/include/linux/netfilter_bridge: time stamp 2026-11-30 05:47:34 is 34196571.56103063 s in the future -tar: ./usr/include/linux/netfilter_arp: time stamp 2026-11-30 05:47:34 is 34196571.56095703 s in the future -tar: ./usr/include/linux/netfilter/ipset: time stamp 2026-11-30 05:47:34 is 34196571.55818559 s in the future -tar: ./usr/include/linux/netfilter: time stamp 2026-11-30 05:47:34 is 34196571.55794619 s in the future -tar: ./usr/include/linux/mmc: time stamp 2026-11-30 05:47:34 is 34196571.55771091 s in the future -tar: ./usr/include/linux/misc: time stamp 2026-11-30 05:47:34 is 34196571.55748307 s in the future -tar: ./usr/include/linux/media/raspberrypi: time stamp 2026-11-30 05:47:34 is 34196571.55715679 s in the future -tar: ./usr/include/linux/media/amlogic: time stamp 2026-11-30 05:47:34 is 34196571.55659931 s in the future -tar: ./usr/include/linux/media: time stamp 2026-11-30 05:47:34 is 34196571.55659075 s in the future -tar: ./usr/include/linux/isdn: time stamp 2026-11-30 05:47:34 is 34196571.55654475 s in the future -tar: ./usr/include/linux/iio: time stamp 2026-11-30 05:47:34 is 34196571.55648867 s in the future -tar: ./usr/include/linux/hsi: time stamp 2026-11-30 05:47:34 is 34196571.55644643 s in the future -tar: ./usr/include/linux/hdlc: time stamp 2026-11-30 05:47:34 is 34196571.55640647 s in the future -tar: ./usr/include/linux/genwqe: time stamp 2026-11-30 05:47:34 is 34196571.55636811 s in the future -tar: ./usr/include/linux/dvb: time stamp 2026-11-30 05:47:34 is 34196571.55565655 s in the future -tar: ./usr/include/linux/counter: time stamp 2026-11-30 05:47:34 is 34196571.55558795 s in the future -tar: ./usr/include/linux/cifs: time stamp 2026-11-30 05:47:34 is 34196571.55554195 s in the future -tar: ./usr/include/linux/can: time stamp 2026-11-30 05:47:34 is 34196571.55484367 s in the future -tar: ./usr/include/linux/caif: time stamp 2026-11-30 05:47:34 is 34196571.55454531 s in the future -tar: ./usr/include/linux/byteorder: time stamp 2026-11-30 05:47:34 is 34196571.55421743 s in the future -tar: ./usr/include/linux/android: time stamp 2026-11-30 05:47:34 is 34196571.55414411 s in the future -tar: ./usr/include/linux: time stamp 2026-11-30 05:47:34 is 34196571.55413591 s in the future -tar: ./usr/include/fwctl: time stamp 2026-11-30 05:47:34 is 34196571.55215903 s in the future -tar: ./usr/include/drm: time stamp 2026-11-30 05:47:34 is 34196571.54574675 s in the future -tar: ./usr/include/cxl: time stamp 2026-11-30 05:47:34 is 34196571.54509475 s in the future -tar: ./usr/include/asm-generic: time stamp 2026-11-30 05:47:34 is 34196571.54418259 s in the future -tar: ./usr/include/c++/15/tr2: time stamp 2026-12-01 22:29:39 is 34343096.54160163 s in the future -tar: ./usr/include/c++/15/tr1: time stamp 2026-12-01 22:29:39 is 34343096.53666519 s in the future -tar: ./usr/include/c++/15/pstl: time stamp 2026-12-01 22:29:39 is 34343096.53353023 s in the future -tar: ./usr/include/c++/15/parallel: time stamp 2026-12-01 22:29:39 is 34343096.53001839 s in the future -tar: ./usr/include/c++/15/ext/pb_ds/detail/unordered_iterator: time stamp 2026-12-01 22:29:39 is 34343096.52935363 s in the future -tar: ./usr/include/c++/15/ext/pb_ds/detail/trie_policy: time stamp 2026-12-01 22:29:39 is 34343096.52917803 s in the future -tar: ./usr/include/c++/15/ext/pb_ds/detail/tree_policy: time stamp 2026-12-01 22:29:39 is 34343096.52908443 s in the future -tar: ./usr/include/c++/15/ext/pb_ds/detail/thin_heap_: time stamp 2026-12-01 22:29:39 is 34343096.52862527 s in the future -tar: ./usr/include/c++/15/ext/pb_ds/detail/splay_tree_: time stamp 2026-12-01 22:29:39 is 34343096.52844051 s in the future -tar: ./usr/include/c++/15/ext/pb_ds/detail/resize_policy: time stamp 2026-12-01 22:29:39 is 34343096.52789823 s in the future -tar: ./usr/include/c++/15/ext/pb_ds/detail/rc_binomial_heap_: time stamp 2026-12-01 22:29:39 is 34343096.52742555 s in the future -tar: ./usr/include/c++/15/ext/pb_ds/detail/rb_tree_map_: time stamp 2026-12-01 22:29:39 is 34343096.52702543 s in the future -tar: ./usr/include/c++/15/ext/pb_ds/detail/pat_trie_: time stamp 2026-12-01 22:29:39 is 34343096.52602391 s in the future -tar: ./usr/include/c++/15/ext/pb_ds/detail/pairing_heap_: time stamp 2026-12-01 22:29:39 is 34343096.52556639 s in the future -tar: ./usr/include/c++/15/ext/pb_ds/detail/ov_tree_map_: time stamp 2026-12-01 22:29:39 is 34343096.52504231 s in the future -tar: ./usr/include/c++/15/ext/pb_ds/detail/list_update_policy: time stamp 2026-12-01 22:29:39 is 34343096.52492563 s in the future -tar: ./usr/include/c++/15/ext/pb_ds/detail/list_update_map_: time stamp 2026-12-01 22:29:39 is 34343096.52448603 s in the future -tar: ./usr/include/c++/15/ext/pb_ds/detail/left_child_next_sibling_heap_: time stamp 2026-12-01 22:29:39 is 34343096.52397527 s in the future -tar: ./usr/include/c++/15/ext/pb_ds/detail/hash_fn: time stamp 2026-12-01 22:29:39 is 34343096.52345727 s in the future -tar: ./usr/include/c++/15/ext/pb_ds/detail/gp_hash_table_map_: time stamp 2026-12-01 22:29:39 is 34343096.52281603 s in the future -tar: ./usr/include/c++/15/ext/pb_ds/detail/eq_fn: time stamp 2026-12-01 22:29:39 is 34343096.52273915 s in the future -tar: ./usr/include/c++/15/ext/pb_ds/detail/cc_hash_table_map_: time stamp 2026-12-01 22:29:39 is 34343096.52186071 s in the future -tar: ./usr/include/c++/15/ext/pb_ds/detail/branch_policy: time stamp 2026-12-01 22:29:39 is 34343096.52176047 s in the future -tar: ./usr/include/c++/15/ext/pb_ds/detail/binomial_heap_base_: time stamp 2026-12-01 22:29:39 is 34343096.52127427 s in the future -tar: ./usr/include/c++/15/ext/pb_ds/detail/binomial_heap_: time stamp 2026-12-01 22:29:39 is 34343096.52116975 s in the future -tar: ./usr/include/c++/15/ext/pb_ds/detail/binary_heap_: time stamp 2026-12-01 22:29:39 is 34343096.52057675 s in the future -tar: ./usr/include/c++/15/ext/pb_ds/detail/bin_search_tree_: time stamp 2026-12-01 22:29:39 is 34343096.52003963 s in the future -tar: ./usr/include/c++/15/ext/pb_ds/detail: time stamp 2026-12-01 22:29:39 is 34343096.51958331 s in the future -tar: ./usr/include/c++/15/ext/pb_ds: time stamp 2026-12-01 22:29:39 is 34343096.51912575 s in the future -tar: ./usr/include/c++/15/ext: time stamp 2026-12-01 22:29:39 is 34343096.51374739 s in the future -tar: ./usr/include/c++/15/experimental/bits: time stamp 2026-12-01 22:29:39 is 34343096.50789751 s in the future -tar: ./usr/include/c++/15/experimental: time stamp 2026-12-01 22:29:39 is 34343096.50459199 s in the future -tar: ./usr/include/c++/15/decimal: time stamp 2026-12-01 22:29:39 is 34343096.50419819 s in the future -tar: ./usr/include/c++/15/debug: time stamp 2026-12-01 22:29:39 is 34343096.50092355 s in the future -tar: ./usr/include/c++/15/bits: time stamp 2026-12-01 22:29:39 is 34343096.47206867 s in the future -tar: ./usr/include/c++/15/backward: time stamp 2026-12-01 22:29:39 is 34343096.47124843 s in the future -tar: ./usr/include/c++/15: time stamp 2026-12-01 22:29:39 is 34343096.45672483 s in the future -tar: ./usr/include/c++: time stamp 2026-11-30 05:47:34 is 34196571.45668435 s in the future -tar: ./usr/include/scsi/fc: time stamp 2026-11-30 05:47:34 is 34196571.44710795 s in the future -tar: ./usr/include/scsi: time stamp 2026-11-30 05:47:34 is 34196571.44698987 s in the future -tar: ./usr/include/rpc: time stamp 2026-11-30 05:47:32 is 34196569.44647799 s in the future -tar: ./usr/include/protocols: time stamp 2026-11-30 05:47:32 is 34196569.44614371 s in the future -tar: ./usr/include/nfs: time stamp 2026-11-30 05:47:32 is 34196569.44589711 s in the future -tar: ./usr/include/netrose: time stamp 2026-11-30 05:47:32 is 34196569.44566643 s in the future -tar: ./usr/include/netrom: time stamp 2026-11-30 05:47:32 is 34196569.44552235 s in the future -tar: ./usr/include/netpacket: time stamp 2026-11-30 05:47:32 is 34196569.44547711 s in the future -tar: ./usr/include/netiucv: time stamp 2026-11-30 05:47:32 is 34196569.44544507 s in the future -tar: ./usr/include/netipx: time stamp 2026-11-30 05:47:32 is 34196569.44540859 s in the future -tar: ./usr/include/netinet: time stamp 2026-11-30 05:47:32 is 34196569.44472339 s in the future -tar: ./usr/include/neteconet: time stamp 2026-11-30 05:47:32 is 34196569.44462459 s in the future -tar: ./usr/include/netax25: time stamp 2026-11-30 05:47:32 is 34196569.44413171 s in the future -tar: ./usr/include/netatalk: time stamp 2026-11-30 05:47:32 is 34196569.44398315 s in the future -tar: ./usr/include/netash: time stamp 2026-11-30 05:47:32 is 34196569.44393039 s in the future -tar: ./usr/include/net: time stamp 2026-11-30 05:47:32 is 34196569.44377187 s in the future -tar: ./usr/include/finclude/aarch64-linux-gnu: time stamp 2026-11-30 05:47:32 is 34196569.44371819 s in the future -tar: ./usr/include/finclude: time stamp 2026-11-30 05:47:32 is 34196569.44371175 s in the future -tar: ./usr/include/arpa: time stamp 2026-11-30 05:47:32 is 34196569.44314847 s in the future -tar: ./usr/include/aarch64-linux-gnu/c++/15/ext: time stamp 2026-12-01 22:29:39 is 34343096.44226883 s in the future -tar: ./usr/include/aarch64-linux-gnu/c++/15/bits: time stamp 2026-12-01 22:29:39 is 34343096.44106291 s in the future -tar: ./usr/include/aarch64-linux-gnu/c++/15: time stamp 2026-11-30 05:47:34 is 34196571.44103907 s in the future -tar: ./usr/include/aarch64-linux-gnu/c++: time stamp 2026-11-30 05:47:34 is 34196571.44103339 s in the future -tar: ./usr/include/aarch64-linux-gnu/sys: time stamp 2026-11-30 05:47:32 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is 34343093.82598519 s in the future -tar: ./var/log/alternatives.log: time stamp 2026-12-01 16:41:49 is 34322225.82596127 s in the future -tar: ./var/log/lastlog: time stamp 2026-11-30 05:47:21 is 34196557.82593435 s in the future -tar: ./var/log/btmp: time stamp 2026-11-30 05:47:21 is 34196557.82592107 s in the future -tar: ./var/log/wtmp: time stamp 2026-11-30 05:47:21 is 34196557.82591119 s in the future -tar: ./var/log/dpkg.log: time stamp 2026-12-01 22:29:40 is 34343096.82553243 s in the future -tar: ./var/log: time stamp 2026-11-30 05:47:35 is 34196571.82550339 s in the future -tar: ./var/cache/ldconfig/aux-cache: time stamp 2026-12-01 22:29:40 is 34343096.82512691 s in the future -tar: ./var/cache/ldconfig: time stamp 2026-12-01 22:29:40 is 34343096.82509531 s in the future -tar: ./var/cache/debconf/tmp.ci: time stamp 2026-11-30 05:47:38 is 34196574.82504935 s in the future -tar: ./var/cache/debconf/passwords.dat: time stamp 2026-11-30 05:47:21 is 34196557.82503519 s in the future -tar: ./var/cache/debconf/config.dat-old: time stamp 2026-11-30 05:47:35 is 34196571.82500731 s in the future -tar: ./var/cache/debconf/config.dat: time stamp 2026-11-30 05:48:05 is 34196601.82498887 s in the future -tar: ./var/cache/debconf/templates.dat-old: time stamp 2026-11-30 05:47:35 is 34196571.82195947 s in the future -tar: ./var/cache/debconf/templates.dat: time stamp 2026-11-30 05:48:05 is 34196601.81858479 s in the future -tar: ./var/cache/debconf: time stamp 2026-11-30 05:48:05 is 34196601.81852891 s in the future -tar: ./var/cache/apt/archives/lock: time stamp 2026-11-30 05:47:37 is 34196573.81836043 s in the future -tar: ./var/cache/apt/archives/partial: time stamp 2026-12-01 22:29:37 is 34343093.81827391 s in the future -tar: ./var/cache/apt/archives: time stamp 2026-12-01 22:29:42 is 34343098.81825911 s in the future -tar: ./var/cache: time stamp 2026-11-30 05:47:39 is 34196575.81825059 s in the future -tar: ./var/lib/shells.state: time stamp 2026-11-30 05:47:25 is 34196561.81819783 s in the future -tar: ./var/lib/pam/session-noninteractive: time stamp 2026-11-30 05:47:26 is 34196562.81815175 s in the future -tar: ./var/lib/pam/session: time stamp 2026-11-30 05:47:26 is 34196562.81812639 s in the future -tar: ./var/lib/pam/password: time stamp 2026-11-30 05:47:26 is 34196562.81811403 s in the future -tar: ./var/lib/pam/account: time stamp 2026-11-30 05:47:26 is 34196562.81810195 s in the future -tar: ./var/lib/pam/auth: time stamp 2026-11-30 05:47:26 is 34196562.81808983 s in the future -tar: ./var/lib/pam/seen: time stamp 2026-11-30 05:47:26 is 34196562.81807851 s in the future -tar: ./var/lib/pam: time stamp 2026-11-30 05:47:26 is 34196562.81807219 s in the future -tar: ./var/lib/systemd/deb-systemd-helper-enabled/apt-daily.timer.dsh-also: time stamp 2026-11-30 05:47:35 is 34196571.81803063 s in the future -tar: ./var/lib/systemd/deb-systemd-helper-enabled/apt-daily-upgrade.timer.dsh-also: time stamp 2026-11-30 05:47:35 is 34196571.81801039 s in the future -tar: ./var/lib/systemd/deb-systemd-helper-enabled/dpkg-db-backup.timer.dsh-also: time stamp 2026-11-30 05:47:26 is 34196562.81742251 s in the future -tar: ./var/lib/systemd/deb-systemd-helper-enabled/timers.target.wants/apt-daily.timer: time stamp 2026-11-30 05:47:35 is 34196571.81735431 s in the future -tar: ./var/lib/systemd/deb-systemd-helper-enabled/timers.target.wants/apt-daily-upgrade.timer: time stamp 2026-11-30 05:47:35 is 34196571.81734007 s in the future -tar: ./var/lib/systemd/deb-systemd-helper-enabled/timers.target.wants/fstrim.timer: time stamp 2026-11-30 05:47:26 is 34196562.81732899 s in the future -tar: ./var/lib/systemd/deb-systemd-helper-enabled/timers.target.wants/dpkg-db-backup.timer: time stamp 2026-11-30 05:47:21 is 34196557.81731919 s in the future -tar: ./var/lib/systemd/deb-systemd-helper-enabled/timers.target.wants: time stamp 2026-11-30 05:47:35 is 34196571.81731103 s in the future -tar: ./var/lib/systemd/deb-systemd-helper-enabled/fstrim.timer.dsh-also: time stamp 2026-12-01 16:41:50 is 34322226.81729799 s in the future -tar: ./var/lib/systemd/deb-systemd-helper-enabled: time stamp 2026-12-01 16:41:50 is 34322226.81729107 s in the future -tar: ./var/lib/systemd: time stamp 2026-11-30 05:47:21 is 34196557.81728563 s in the future -tar: ./var/lib/dpkg/diversions: time stamp 2026-11-30 05:47:40 is 34196576.81724299 s in the future -tar: ./var/lib/dpkg/diversions-old: time stamp 2026-11-30 05:47:40 is 34196576.81721923 s in the future -tar: ./var/lib/dpkg/cmethopt: time stamp 2026-11-30 05:47:25 is 34196561.81720579 s in the future -tar: ./var/lib/dpkg/arch-native: time stamp 2026-11-30 05:47:25 is 34196561.81719231 s in the future -tar: ./var/lib/dpkg/triggers/Unincorp: time stamp 2026-11-30 05:47:25 is 34196561.81716859 s in the future -tar: ./var/lib/dpkg/triggers/File: time stamp 2026-11-30 05:47:24 is 34196560.81715163 s in the future -tar: 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2026-11-30 05:47:19 is 34196555.37473975 s in the future -tar: ./usr/share/locale/pt_BR/LC_TIME: time stamp 2026-11-30 05:47:22 is 34196558.37473155 s in the future -tar: ./usr/share/locale/pt_BR: time stamp 2026-11-30 05:47:19 is 34196555.37472559 s in the future -tar: ./usr/share/locale/ro/LC_TIME: time stamp 2026-11-30 05:47:22 is 34196558.37471799 s in the future -tar: ./usr/share/locale/ro: time stamp 2026-11-30 05:47:19 is 34196555.37471147 s in the future -tar: ./usr/share/locale/ru/LC_TIME: time stamp 2026-11-30 05:47:22 is 34196558.37470423 s in the future -tar: ./usr/share/locale/ru: time stamp 2026-11-30 05:47:19 is 34196555.37469795 s in the future -tar: ./usr/share/locale/sk/LC_TIME: time stamp 2026-11-30 05:47:22 is 34196558.37469083 s in the future -tar: ./usr/share/locale/sk: time stamp 2026-11-30 05:47:19 is 34196555.37468467 s in the future -tar: ./usr/share/locale/sl/LC_TIME: time stamp 2026-11-30 05:47:22 is 34196558.37467691 s in the future -tar: ./usr/share/locale/sl: time stamp 2026-11-30 05:47:19 is 34196555.37467035 s in the future -tar: ./usr/share/locale/sr/LC_TIME: time stamp 2026-11-30 05:47:22 is 34196558.37466335 s in the future -tar: ./usr/share/locale/sr: time stamp 2026-11-30 05:47:19 is 34196555.37465755 s in the future -tar: ./usr/share/locale/sv/LC_TIME: time stamp 2026-11-30 05:47:22 is 34196558.37465047 s in the future -tar: ./usr/share/locale/sv: time stamp 2026-11-30 05:47:19 is 34196555.37464447 s in the future -tar: ./usr/share/locale/tr/LC_TIME: time stamp 2026-11-30 05:47:22 is 34196558.37463695 s in the future -tar: ./usr/share/locale/tr: time stamp 2026-11-30 05:47:19 is 34196555.37463035 s in the future -tar: ./usr/share/locale/uk/LC_TIME: time stamp 2026-11-30 05:47:22 is 34196558.37462279 s in the future -tar: ./usr/share/locale/uk: time stamp 2026-11-30 05:47:19 is 34196555.37461595 s in the future -tar: ./usr/share/locale/vi/LC_TIME: time stamp 2026-11-30 05:47:22 is 34196558.37460847 s in the future -tar: ./usr/share/locale/vi: time stamp 2026-11-30 05:47:19 is 34196555.37460251 s in the future -tar: ./usr/share/locale/zh_CN/LC_TIME: time stamp 2026-11-30 05:47:22 is 34196558.37459419 s in the future -tar: ./usr/share/locale/zh_CN: time stamp 2026-11-30 05:47:19 is 34196555.37458815 s in the future -tar: ./usr/share/locale/zh_TW/LC_TIME: time stamp 2026-11-30 05:47:22 is 34196558.37458059 s in the future -tar: ./usr/share/locale/zh_TW: time stamp 2026-11-30 05:47:19 is 34196555.37457419 s in the future -tar: ./usr/share/locale/be/LC_TIME: time stamp 2026-11-30 05:47:22 is 34196558.37456667 s in the future -tar: ./usr/share/locale/eu/LC_TIME: time stamp 2026-11-30 05:47:22 is 34196558.37455583 s in the future -tar: ./usr/share/locale/ia/LC_TIME: time stamp 2026-11-30 05:47:22 is 34196558.37454475 s in the future -tar: ./usr/share/locale/kk/LC_TIME: time stamp 2026-11-30 05:47:22 is 34196558.37453331 s in the future -tar: ./usr/share/locale/lg/LC_TIME: time stamp 2026-11-30 05:47:22 is 34196558.37452227 s in the future -tar: ./usr/share/locale/ms/LC_TIME: time stamp 2026-11-30 05:47:22 is 34196558.37451099 s in the future -tar: ./usr/share/locale/ta/LC_TIME: time stamp 2026-11-30 05:47:22 is 34196558.37450027 s in the future -tar: ./usr/share/locale: time stamp 2026-11-30 05:47:39 is 34196575.37449007 s in the future -tar: ./usr/share/aptitude: time stamp 2026-11-30 05:47:39 is 34196575.37448283 s in the future -tar: ./usr/share: time stamp 2026-11-30 05:47:39 is 34196575.37447719 s in the future -tar: ./usr: time stamp 2026-11-30 05:47:21 is 34196557.37447191 s in the future -tar: ./etc/alternatives: time stamp 2026-11-30 05:47:40 is 34196576.37446011 s in the future -tar: ./etc/systemd/system/timers.target.wants: time stamp 2026-11-30 05:47:35 is 34196571.37445283 s in the future -tar: ./etc/systemd/system: time stamp 2026-11-30 05:47:21 is 34196557.37444691 s in the future I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem @@ -2564,53 +27,85 @@ dpkg-source: info: applying 0001-vcf-fix-ploidy-make-p-work-without-.-on-INC.patch I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/3574780/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/2220918/tmp/hooks/D01_modify_environment starting +debug: Running on codethink04-arm64. +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 Oct 30 22:45 /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/2220918/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/2220918/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='arm64' - DEBIAN_FRONTEND='noninteractive' + BASH=/bin/sh + BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:globskipdots:hostcomplete:interactive_comments:patsub_replacement:progcomp:promptvars:sourcepath + BASH_ALIASES=() + BASH_ARGC=() + BASH_ARGV=() + BASH_CMDS=() + BASH_LINENO=([0]="12" [1]="0") + BASH_LOADABLES_PATH=/usr/local/lib/bash:/usr/lib/bash:/opt/local/lib/bash:/usr/pkg/lib/bash:/opt/pkg/lib/bash:. + BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") + BASH_VERSINFO=([0]="5" [1]="3" [2]="3" [3]="1" [4]="release" [5]="aarch64-unknown-linux-gnu") + BASH_VERSION='5.3.3(1)-release' + BUILDDIR=/build/reproducible-path + BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' + BUILDUSERNAME=pbuilder2 + BUILD_ARCH=arm64 + DEBIAN_FRONTEND=noninteractive DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 ' - DISTRIBUTION='forky' - HOME='/root' - HOST_ARCH='arm64' + DIRSTACK=() + DISTRIBUTION=forky + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=aarch64 + HOST_ARCH=arm64 IFS=' ' - INVOCATION_ID='1f1da193a55c414991b2ac5448a6e0ad' - 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='3574780' - PS1='# ' - PS2='> ' + INVOCATION_ID=cd16a95c739b45a3808fa5940eed85e9 + LANG=C + LANGUAGE=nl_BE:nl + LC_ALL=C + MACHTYPE=aarch64-unknown-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=2220918 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.7IOTWDbZ/pbuilderrc_CFQQ --distribution forky --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/forky-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.7IOTWDbZ/b1 --logfile b1/build.log vcftools_0.1.17-1.dsc' - SUDO_GID='109' - SUDO_HOME='/var/lib/jenkins' - SUDO_UID='104' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - _='/usr/bin/systemd-run' - http_proxy='http://192.168.101.4:3128' + 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.7IOTWDbZ/pbuilderrc_WHJ2 --distribution forky --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/forky-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.7IOTWDbZ/b2 --logfile b2/build.log vcftools_0.1.17-1.dsc' + SUDO_GID=109 + SUDO_HOME=/var/lib/jenkins + SUDO_UID=104 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' + http_proxy=http://192.168.101.4:3128 I: uname -a - Linux codethink03-arm64 6.12.48+deb13-cloud-arm64 #1 SMP Debian 6.12.48-1 (2025-09-20) aarch64 GNU/Linux + Linux i-capture-the-hostname 6.12.48+deb13-cloud-arm64 #1 SMP Debian 6.12.48-1 (2025-09-20) aarch64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Aug 10 12:30 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/3574780/tmp/hooks/D02_print_environment finished +I: user script /srv/workspace/pbuilder/2220918/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -2683,7 +178,7 @@ Get: 31 http://deb.debian.org/debian forky/main arm64 pkgconf-bin arm64 1.8.1-4 [29.6 kB] Get: 32 http://deb.debian.org/debian forky/main arm64 pkgconf arm64 1.8.1-4 [26.1 kB] Get: 33 http://deb.debian.org/debian forky/main arm64 zlib1g-dev arm64 1:1.3.dfsg+really1.3.1-1+b1 [917 kB] -Fetched 12.0 MB in 0s (77.9 MB/s) +Fetched 12.0 MB in 0s (89.6 MB/s) Preconfiguring packages ... Selecting previously unselected package sensible-utils. (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 ... 19971 files and directories currently installed.) @@ -2830,7 +325,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/vcftools-0.1.17/ && 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 > ../vcftools_0.1.17-1_source.changes +I: user script /srv/workspace/pbuilder/2220918/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for forky +I: user script /srv/workspace/pbuilder/2220918/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/vcftools-0.1.17/ && 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 > ../vcftools_0.1.17-1_source.changes dpkg-buildpackage: info: source package vcftools dpkg-buildpackage: info: source version 0.1.17-1 dpkg-buildpackage: info: source distribution unstable @@ -2880,8 +379,8 @@ checking whether make sets $(MAKE)... yes checking whether make supports nested variables... yes checking xargs -n works... yes -checking whether UID '1111' is supported by ustar format... yes -checking whether GID '1111' is supported by ustar format... yes +checking whether UID '2222' is supported by ustar format... yes +checking whether GID '2222' is supported by ustar format... yes checking how to create a ustar tar archive... gnutar checking for g++... g++ checking whether the C++ compiler works... yes @@ -3011,7 +510,6 @@ g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-variant_file_filters.o `test -f 'variant_file_filters.cpp' || echo './'`variant_file_filters.cpp g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-variant_file_format_convert.o `test -f 'variant_file_format_convert.cpp' || echo './'`variant_file_format_convert.cpp g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-variant_file_output.o `test -f 'variant_file_output.cpp' || echo './'`variant_file_output.cpp -g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-vcf_entry.o `test -f 'vcf_entry.cpp' || echo './'`vcf_entry.cpp variant_file_filters.cpp: In member function 'void variant_file::filter_individuals_randomly(int)': variant_file_filters.cpp:129:23: warning: 'void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]' is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 129 | random_shuffle(keep_index.begin(), keep_index.end()); // Get a random order @@ -3022,9 +520,8 @@ /usr/include/c++/15/bits/stl_algo.h:4537:5: note: declared here 4537 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ +g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-vcf_entry.o `test -f 'vcf_entry.cpp' || echo './'`vcf_entry.cpp g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-vcf_entry_setters.o `test -f 'vcf_entry_setters.cpp' || echo './'`vcf_entry_setters.cpp -g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-vcf_file.o `test -f 'vcf_file.cpp' || echo './'`vcf_file.cpp -g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-vcftools.o `test -f 'vcftools.cpp' || echo './'`vcftools.cpp In file included from /usr/include/c++/15/bits/stl_algobase.h:64, from /usr/include/c++/15/algorithm:62, from variant_file.h:15, @@ -3036,6 +533,8 @@ /usr/include/c++/15/bits/stl_pair.h:1164:5: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 1164 | make_pair(_T1&& __x, _T2&& __y) | ^~~~~~~~~ +g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-vcf_file.o `test -f 'vcf_file.cpp' || echo './'`vcf_file.cpp +g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o vcftools-vcftools.o `test -f 'vcftools.cpp' || echo './'`vcftools.cpp g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/vcftools-0.1.17=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wl,-z,relro -Wl,-z,now -o vcftools vcftools-bcf_entry.o vcftools-bcf_entry_setters.o vcftools-bcf_file.o vcftools-bgzf.o vcftools-dgeev.o vcftools-entry.o vcftools-entry_filters.o vcftools-entry_getters.o vcftools-entry_setters.o vcftools-gamma.o vcftools-header.o vcftools-knetfile.o vcftools-output_log.o vcftools-parameters.o vcftools-variant_file.o vcftools-variant_file_diff.o vcftools-variant_file_filters.o vcftools-variant_file_format_convert.o vcftools-variant_file_output.o vcftools-vcf_entry.o vcftools-vcf_entry_setters.o vcftools-vcf_file.o vcftools-vcftools.o -lz make[4]: Leaving directory '/build/reproducible-path/vcftools-0.1.17/src/cpp' Making all in perl @@ -3070,7 +569,7 @@ make[2]: Entering directory '/build/reproducible-path/vcftools-0.1.17' make[2]: Leaving directory '/build/reproducible-path/vcftools-0.1.17' make[1]: Leaving directory '/build/reproducible-path/vcftools-0.1.17' - rm -fr -- /tmp/dh-xdg-rundir-j1GV_vU2 + rm -fr -- /tmp/dh-xdg-rundir-zvzyiQkh create-stamp debian/debhelper-build-stamp dh_prep rm -f -- debian/vcftools.substvars @@ -3093,8 +592,8 @@ Making install in perl make[3]: Entering directory '/build/reproducible-path/vcftools-0.1.17/src/perl' make[4]: Entering directory '/build/reproducible-path/vcftools-0.1.17/src/perl' - /usr/bin/mkdir -p '/build/reproducible-path/vcftools-0.1.17/debian/vcftools/usr/bin' /usr/bin/mkdir -p '/build/reproducible-path/vcftools-0.1.17/debian/vcftools/usr//share/perl5' + /usr/bin/mkdir -p '/build/reproducible-path/vcftools-0.1.17/debian/vcftools/usr/bin' /usr/bin/install -c -m 644 FaSlice.pm Vcf.pm VcfStats.pm '/build/reproducible-path/vcftools-0.1.17/debian/vcftools/usr//share/perl5' /usr/bin/install -c fill-aa fill-an-ac fill-fs fill-ref-md5 vcf-annotate vcf-compare vcf-concat vcf-consensus vcf-contrast vcf-convert vcf-fix-newlines vcf-fix-ploidy vcf-indel-stats vcf-isec vcf-merge vcf-phased-join vcf-query vcf-shuffle-cols vcf-sort vcf-stats vcf-subset vcf-to-tab vcf-tstv vcf-validator '/build/reproducible-path/vcftools-0.1.17/debian/vcftools/usr/bin' make[4]: Leaving directory '/build/reproducible-path/vcftools-0.1.17/src/perl' @@ -3204,22 +703,26 @@ install -p -m0644 ./debian/mans/vcf-validator.1 debian/vcftools/usr/share/man/man1/vcf-validator.1 install -m0755 -d debian/vcftools/usr/share/man/man1/ install -p -m0644 ./src/cpp/vcftools.1 debian/vcftools/usr/share/man/man1/vcftools.1 - man-recode --to-code UTF-8 --suffix .dh-new debian/vcftools/usr/share/man/man1/fill-ref-md5.1 debian/vcftools/usr/share/man/man1/fill-rsIDs.1 debian/vcftools/usr/share/man/man1/vcf-annotate.1 man-recode --to-code UTF-8 --suffix .dh-new debian/vcftools/usr/share/man/man1/fill-aa.1 debian/vcftools/usr/share/man/man1/fill-an-ac.1 debian/vcftools/usr/share/man/man1/fill-fs.1 + man-recode --to-code UTF-8 --suffix .dh-new debian/vcftools/usr/share/man/man1/fill-ref-md5.1 debian/vcftools/usr/share/man/man1/fill-rsIDs.1 debian/vcftools/usr/share/man/man1/vcf-annotate.1 man-recode --to-code UTF-8 --suffix .dh-new debian/vcftools/usr/share/man/man1/vcf-compare.1 debian/vcftools/usr/share/man/man1/vcf-concat.1 debian/vcftools/usr/share/man/man1/vcf-consensus.1 - man-recode --to-code UTF-8 --suffix .dh-new debian/vcftools/usr/share/man/man1/vcf-merge.1 debian/vcftools/usr/share/man/man1/vcf-phased-join.1 debian/vcftools/usr/share/man/man1/vcf-query.1 + man-recode --to-code UTF-8 --suffix .dh-new debian/vcftools/usr/share/man/man1/vcf-contrast.1 debian/vcftools/usr/share/man/man1/vcf-convert.1 debian/vcftools/usr/share/man/man1/vcf-fix-newlines.1 man-recode --to-code UTF-8 --suffix .dh-new debian/vcftools/usr/share/man/man1/vcf-fix-ploidy.1 debian/vcftools/usr/share/man/man1/vcf-indel-stats.1 debian/vcftools/usr/share/man/man1/vcf-isec.1 man-recode --to-code UTF-8 --suffix .dh-new debian/vcftools/usr/share/man/man1/vcf-shuffle-cols.1 debian/vcftools/usr/share/man/man1/vcf-sort.1 debian/vcftools/usr/share/man/man1/vcf-stats.1 - man-recode --to-code UTF-8 --suffix .dh-new debian/vcftools/usr/share/man/man1/vcf-subset.1 debian/vcftools/usr/share/man/man1/vcf-to-tab.1 debian/vcftools/usr/share/man/man1/vcf-tstv.1 - man-recode --to-code UTF-8 --suffix .dh-new debian/vcftools/usr/share/man/man1/vcf-contrast.1 debian/vcftools/usr/share/man/man1/vcf-convert.1 debian/vcftools/usr/share/man/man1/vcf-fix-newlines.1 + man-recode --to-code UTF-8 --suffix .dh-new debian/vcftools/usr/share/man/man1/vcf-merge.1 debian/vcftools/usr/share/man/man1/vcf-phased-join.1 debian/vcftools/usr/share/man/man1/vcf-query.1 man-recode --to-code UTF-8 --suffix .dh-new debian/vcftools/usr/share/man/man1/vcf-validator.1 debian/vcftools/usr/share/man/man1/vcftools.1 + man-recode --to-code UTF-8 --suffix .dh-new debian/vcftools/usr/share/man/man1/vcf-subset.1 debian/vcftools/usr/share/man/man1/vcf-to-tab.1 debian/vcftools/usr/share/man/man1/vcf-tstv.1 + mv debian/vcftools/usr/share/man/man1/vcf-validator.1.dh-new debian/vcftools/usr/share/man/man1/vcf-validator.1 + mv debian/vcftools/usr/share/man/man1/vcftools.1.dh-new debian/vcftools/usr/share/man/man1/vcftools.1 + chmod 0644 -- debian/vcftools/usr/share/man/man1/vcf-validator.1 debian/vcftools/usr/share/man/man1/vcftools.1 mv debian/vcftools/usr/share/man/man1/vcf-contrast.1.dh-new debian/vcftools/usr/share/man/man1/vcf-contrast.1 mv debian/vcftools/usr/share/man/man1/vcf-convert.1.dh-new debian/vcftools/usr/share/man/man1/vcf-convert.1 mv debian/vcftools/usr/share/man/man1/vcf-fix-newlines.1.dh-new debian/vcftools/usr/share/man/man1/vcf-fix-newlines.1 chmod 0644 -- debian/vcftools/usr/share/man/man1/vcf-contrast.1 debian/vcftools/usr/share/man/man1/vcf-convert.1 debian/vcftools/usr/share/man/man1/vcf-fix-newlines.1 - mv debian/vcftools/usr/share/man/man1/vcf-validator.1.dh-new debian/vcftools/usr/share/man/man1/vcf-validator.1 - mv debian/vcftools/usr/share/man/man1/vcftools.1.dh-new debian/vcftools/usr/share/man/man1/vcftools.1 - chmod 0644 -- debian/vcftools/usr/share/man/man1/vcf-validator.1 debian/vcftools/usr/share/man/man1/vcftools.1 + mv debian/vcftools/usr/share/man/man1/vcf-fix-ploidy.1.dh-new debian/vcftools/usr/share/man/man1/vcf-fix-ploidy.1 + mv debian/vcftools/usr/share/man/man1/vcf-indel-stats.1.dh-new debian/vcftools/usr/share/man/man1/vcf-indel-stats.1 + mv debian/vcftools/usr/share/man/man1/vcf-isec.1.dh-new debian/vcftools/usr/share/man/man1/vcf-isec.1 + chmod 0644 -- debian/vcftools/usr/share/man/man1/vcf-fix-ploidy.1 debian/vcftools/usr/share/man/man1/vcf-indel-stats.1 debian/vcftools/usr/share/man/man1/vcf-isec.1 mv debian/vcftools/usr/share/man/man1/vcf-subset.1.dh-new debian/vcftools/usr/share/man/man1/vcf-subset.1 mv debian/vcftools/usr/share/man/man1/vcf-to-tab.1.dh-new debian/vcftools/usr/share/man/man1/vcf-to-tab.1 mv debian/vcftools/usr/share/man/man1/vcf-tstv.1.dh-new debian/vcftools/usr/share/man/man1/vcf-tstv.1 @@ -3228,26 +731,22 @@ mv debian/vcftools/usr/share/man/man1/fill-an-ac.1.dh-new debian/vcftools/usr/share/man/man1/fill-an-ac.1 mv debian/vcftools/usr/share/man/man1/fill-fs.1.dh-new debian/vcftools/usr/share/man/man1/fill-fs.1 chmod 0644 -- debian/vcftools/usr/share/man/man1/fill-aa.1 debian/vcftools/usr/share/man/man1/fill-an-ac.1 debian/vcftools/usr/share/man/man1/fill-fs.1 - mv debian/vcftools/usr/share/man/man1/vcf-fix-ploidy.1.dh-new debian/vcftools/usr/share/man/man1/vcf-fix-ploidy.1 - mv debian/vcftools/usr/share/man/man1/vcf-indel-stats.1.dh-new debian/vcftools/usr/share/man/man1/vcf-indel-stats.1 - mv debian/vcftools/usr/share/man/man1/vcf-isec.1.dh-new debian/vcftools/usr/share/man/man1/vcf-isec.1 - chmod 0644 -- debian/vcftools/usr/share/man/man1/vcf-fix-ploidy.1 debian/vcftools/usr/share/man/man1/vcf-indel-stats.1 debian/vcftools/usr/share/man/man1/vcf-isec.1 mv debian/vcftools/usr/share/man/man1/vcf-shuffle-cols.1.dh-new debian/vcftools/usr/share/man/man1/vcf-shuffle-cols.1 mv debian/vcftools/usr/share/man/man1/vcf-sort.1.dh-new debian/vcftools/usr/share/man/man1/vcf-sort.1 mv debian/vcftools/usr/share/man/man1/vcf-stats.1.dh-new debian/vcftools/usr/share/man/man1/vcf-stats.1 chmod 0644 -- debian/vcftools/usr/share/man/man1/vcf-shuffle-cols.1 debian/vcftools/usr/share/man/man1/vcf-sort.1 debian/vcftools/usr/share/man/man1/vcf-stats.1 - mv debian/vcftools/usr/share/man/man1/fill-ref-md5.1.dh-new debian/vcftools/usr/share/man/man1/fill-ref-md5.1 - mv debian/vcftools/usr/share/man/man1/fill-rsIDs.1.dh-new debian/vcftools/usr/share/man/man1/fill-rsIDs.1 - mv debian/vcftools/usr/share/man/man1/vcf-annotate.1.dh-new debian/vcftools/usr/share/man/man1/vcf-annotate.1 - chmod 0644 -- debian/vcftools/usr/share/man/man1/fill-ref-md5.1 debian/vcftools/usr/share/man/man1/fill-rsIDs.1 debian/vcftools/usr/share/man/man1/vcf-annotate.1 - mv debian/vcftools/usr/share/man/man1/vcf-compare.1.dh-new debian/vcftools/usr/share/man/man1/vcf-compare.1 - mv debian/vcftools/usr/share/man/man1/vcf-concat.1.dh-new debian/vcftools/usr/share/man/man1/vcf-concat.1 - mv debian/vcftools/usr/share/man/man1/vcf-consensus.1.dh-new debian/vcftools/usr/share/man/man1/vcf-consensus.1 - chmod 0644 -- debian/vcftools/usr/share/man/man1/vcf-compare.1 debian/vcftools/usr/share/man/man1/vcf-concat.1 debian/vcftools/usr/share/man/man1/vcf-consensus.1 mv debian/vcftools/usr/share/man/man1/vcf-merge.1.dh-new debian/vcftools/usr/share/man/man1/vcf-merge.1 mv debian/vcftools/usr/share/man/man1/vcf-phased-join.1.dh-new debian/vcftools/usr/share/man/man1/vcf-phased-join.1 mv debian/vcftools/usr/share/man/man1/vcf-query.1.dh-new debian/vcftools/usr/share/man/man1/vcf-query.1 chmod 0644 -- debian/vcftools/usr/share/man/man1/vcf-merge.1 debian/vcftools/usr/share/man/man1/vcf-phased-join.1 debian/vcftools/usr/share/man/man1/vcf-query.1 + mv debian/vcftools/usr/share/man/man1/vcf-compare.1.dh-new debian/vcftools/usr/share/man/man1/vcf-compare.1 + mv debian/vcftools/usr/share/man/man1/vcf-concat.1.dh-new debian/vcftools/usr/share/man/man1/vcf-concat.1 + mv debian/vcftools/usr/share/man/man1/vcf-consensus.1.dh-new debian/vcftools/usr/share/man/man1/vcf-consensus.1 + chmod 0644 -- debian/vcftools/usr/share/man/man1/vcf-compare.1 debian/vcftools/usr/share/man/man1/vcf-concat.1 debian/vcftools/usr/share/man/man1/vcf-consensus.1 + mv debian/vcftools/usr/share/man/man1/fill-ref-md5.1.dh-new debian/vcftools/usr/share/man/man1/fill-ref-md5.1 + mv debian/vcftools/usr/share/man/man1/fill-rsIDs.1.dh-new debian/vcftools/usr/share/man/man1/fill-rsIDs.1 + mv debian/vcftools/usr/share/man/man1/vcf-annotate.1.dh-new debian/vcftools/usr/share/man/man1/vcf-annotate.1 + chmod 0644 -- debian/vcftools/usr/share/man/man1/fill-ref-md5.1 debian/vcftools/usr/share/man/man1/fill-rsIDs.1 debian/vcftools/usr/share/man/man1/vcf-annotate.1 dh_perl mv debian/vcftools.substvars.new debian/vcftools.substvars rmdir --ignore-fail-on-non-empty --parents debian/vcftools/usr/share/perl5 @@ -3306,8 +805,8 @@ cd debian/.debhelper/vcftools/dbgsym-root >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums chmod 0644 -- debian/.debhelper/vcftools/dbgsym-root/DEBIAN/md5sums dh_builddeb - dpkg-deb --root-owner-group --build debian/.debhelper/vcftools/dbgsym-root .. dpkg-deb --root-owner-group --build debian/vcftools .. + dpkg-deb --root-owner-group --build debian/.debhelper/vcftools/dbgsym-root .. dpkg-deb: building package 'vcftools-dbgsym' in '../vcftools-dbgsym_0.1.17-1_arm64.deb'. dpkg-deb: building package 'vcftools' in '../vcftools_0.1.17-1_arm64.deb'. dpkg-genbuildinfo --build=binary -O../vcftools_0.1.17-1_arm64.buildinfo @@ -3317,12 +816,14 @@ 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/2220918/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/2220918/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/3574780 and its subdirectories -I: Current time: Thu Oct 30 10:45:46 -12 2025 -I: pbuilder-time-stamp: 1761864346 +I: removing directory /srv/workspace/pbuilder/2220918 and its subdirectories +I: Current time: Fri Oct 31 12:47:05 +14 2025 +I: pbuilder-time-stamp: 1761864425 Compressing the 2nd log... /var/lib/jenkins/userContent/reproducible/debian/logdiffs/forky/arm64/vcftools_0.1.17-1.diff: 89.3% -- replaced with /var/lib/jenkins/userContent/reproducible/debian/logdiffs/forky/arm64/vcftools_0.1.17-1.diff.gz b2/build.log: 81.6% -- replaced with stdout Compressing the 1st log... b1/build.log: 88.7% -- replaced with stdout Thu Oct 30 22:47:08 UTC 2025 I: diffoscope 306 will be used to compare the two builds: ++ date -u +%s + DIFFOSCOPE_STAMP=/var/log/reproducible-builds/diffoscope_stamp_vcftools_forky_arm64_1761864428 + touch /var/log/reproducible-builds/diffoscope_stamp_vcftools_forky_arm64_1761864428 + RESULT=0 + systemd-run '--description=diffoscope on vcftools/0.1.17-1 in forky/arm64' --slice=rb-build-diffoscope.slice -u rb-diffoscope-arm64_4-102947 '--property=SuccessExitStatus=1 124' --user --send-sighup --pipe --wait -E TMPDIR timeout 155m nice schroot --directory /srv/reproducible-results/rbuild-debian/r-b-build.7IOTWDbZ --run-session -c jenkins-reproducible-forky-diffoscope-1b9c8060-d6b6-416d-833f-8b9ef361945a -- sh -c 'export TMPDIR=/srv/reproducible-results/rbuild-debian/r-b-build.7IOTWDbZ/dbd-tmp-G1z1qm0 ; timeout 150m diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.7IOTWDbZ/vcftools_0.1.17-1.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.7IOTWDbZ/vcftools_0.1.17-1.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.7IOTWDbZ/vcftools_0.1.17-1.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.7IOTWDbZ/b1/vcftools_0.1.17-1_arm64.changes /srv/reproducible-results/rbuild-debian/r-b-build.7IOTWDbZ/b2/vcftools_0.1.17-1_arm64.changes' + false + set +x Running as unit: rb-diffoscope-arm64_4-102947.service; invocation ID: d7e501dd903e45cd9a98d231342e109f # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.7IOTWDbZ/vcftools_0.1.17-1.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.7IOTWDbZ/vcftools_0.1.17-1.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.7IOTWDbZ/vcftools_0.1.17-1.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.7IOTWDbZ/b1/vcftools_0.1.17-1_arm64.changes /srv/reproducible-results/rbuild-debian/r-b-build.7IOTWDbZ/b2/vcftools_0.1.17-1_arm64.changes ## command (total time: 0.000s) 0.000s 1 call cmp (internal) ## has_same_content_as (total time: 0.000s) 0.000s 1 call diffoscope.comparators.binary.FilesystemFile ## main (total time: 0.003s) 0.003s 2 calls outputs 0.000s 1 call cleanup Finished with result: success Main processes terminated with: code=exited, status=0/SUCCESS Service runtime: 213ms CPU time consumed: 171ms Memory peak: 17.7M (swap: 0B) __ _ _ __ _____ / _| |_ ___ ___ | |___ \ \ / / __| |_| __/ _ \ / _ \| / __| \ V / (__| _| || (_) | (_) | \__ \ \_/ \___|_| \__\___/ \___/|_|___/ Thu Oct 30 22:47:08 UTC 2025 I: diffoscope 306 found no differences in the changes files, and a .buildinfo file also exists. Thu Oct 30 22:47:08 UTC 2025 I: vcftools from forky built successfully and reproducibly on arm64. INSERT 0 1 INSERT 0 1 DELETE 1 [2025-10-30 22:47:09] INFO: Starting at 2025-10-30 22:47:09.106544 [2025-10-30 22:47:09] INFO: Generating the pages of 1 package(s) [2025-10-30 22:47:09] CRITICAL: https://tests.reproducible-builds.org/debian/forky/arm64/vcftools didn't produce a buildlog, even though it has been built. [2025-10-30 22:47:09] INFO: Finished at 2025-10-30 22:47:09.384094, took: 0:00:00.277553 Thu Oct 30 22:47:09 UTC 2025 - successfully updated the database and updated https://tests.reproducible-builds.org/debian/rb-pkg/forky/arm64/vcftools.html Thu Oct 30 22:47:09 UTC 2025 I: Removing signed vcftools_0.1.17-1_arm64.buildinfo.asc files: removed './b1/vcftools_0.1.17-1_arm64.buildinfo.asc' removed './b2/vcftools_0.1.17-1_arm64.buildinfo.asc' 1761864429 arm64 forky vcftools Starting cleanup. /var/lib/jenkins/userContent/reproducible/debian/rbuild/forky/arm64/vcftools_0.1.17-1.rbuild.log: 88.1% -- replaced with /var/lib/jenkins/userContent/reproducible/debian/rbuild/forky/arm64/vcftools_0.1.17-1.rbuild.log.gz [2025-10-30 22:47:09] INFO: Starting at 2025-10-30 22:47:09.722965 [2025-10-30 22:47:09] INFO: Generating the pages of 1 package(s) [2025-10-30 22:47:09] INFO: Finished at 2025-10-30 22:47:09.991346, took: 0:00:00.268385 All cleanup done. Thu Oct 30 22:47:10 UTC 2025 - total duration: 0h 2m 47s. Thu Oct 30 22:47:10 UTC 2025 - reproducible_build.sh stopped running as /tmp/jenkins-script-WVPUs9yf, removing. Finished with result: success Main processes terminated with: code=exited, status=0/SUCCESS Service runtime: 2min 48.701s CPU time consumed: 3.399s Memory peak: 52.2M (swap: 0B)