Running as unit: rb-build-arm64_4-97850.service; invocation ID: b36ac991c5d94f568ef4a0f090b6f2c1 ==================================================================================== Wed Sep 17 14:25:44 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. Wed Sep 17 14:25:44 UTC 2025 - actually running "reproducible_build.sh" (md5sum cc591790ab2c8e13f5e554202b95c89c) as "/tmp/jenkins-script-0SYoLZPg" $ git clone https://salsa.debian.org/qa/jenkins.debian.net.git ; more CONTRIBUTING Wed Sep 17 14:25:44 UTC 2025 - checking /var/lib/jenkins/offline_nodes if codethink03-arm64.debian.net is marked as down. Wed Sep 17 14:25:44 UTC 2025 - checking via ssh if codethink03-arm64.debian.net is up. removed '/tmp/read-only-fs-test-j2Ovtl' Wed Sep 17 14:25:45 UTC 2025 - checking /var/lib/jenkins/offline_nodes if codethink04-arm64.debian.net is marked as down. Wed Sep 17 14:25:45 UTC 2025 - checking via ssh if codethink04-arm64.debian.net is up. removed '/tmp/read-only-fs-test-rGgFLa' ok, let's check if sideretro is building anywhere yet… ok, sideretro is not building anywhere… UPDATE 1 ============================================================================= Initialising reproducibly build of sideretro 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. ============================================================================= Wed Sep 17 14:25:51 UTC 2025 I: starting to build sideretro/forky/arm64 on jenkins on '2025-09-17 14:25' Wed Sep 17 14:25:51 UTC 2025 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/arm64_4/97850/console.log 1758119151 arm64 forky sideretro Wed Sep 17 14:25:51 UTC 2025 I: Downloading source for forky/sideretro=1.1.6-2 --2025-09-17 14:25:51-- http://deb.debian.org/debian/pool/main/s/sideretro/sideretro_1.1.6-2.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2057 (2.0K) [text/prs.lines.tag] Saving to: ‘sideretro_1.1.6-2.dsc’ 0K .. 100% 241M=0s 2025-09-17 14:25:51 (241 MB/s) - ‘sideretro_1.1.6-2.dsc’ saved [2057/2057] --2025-09-17 14:25:51-- http://deb.debian.org/debian/pool/main/s/sideretro/sideretro_1.1.6-2.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2057 (2.0K) [text/prs.lines.tag] Saving to: ‘sideretro_1.1.6-2.dsc’ 0K .. 100% 241M=0s 2025-09-17 14:25:51 (241 MB/s) - ‘sideretro_1.1.6-2.dsc’ saved [2057/2057] Wed Sep 17 14:25:51 UTC 2025 I: sideretro_1.1.6-2.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: sideretro Binary: sideretro Architecture: any Version: 1.1.6-2 Maintainer: Debian Med Packaging Team Uploaders: Daniela Moreira Mombach Homepage: https://github.com/galantelab/sideRETRO Standards-Version: 4.7.0 Vcs-Browser: https://salsa.debian.org/med-team/sideretro Vcs-Git: https://salsa.debian.org/med-team/sideretro.git Build-Depends: check , cmake, debhelper-compat (= 13), libhts-dev, libsqlite3-dev, meson, pkgconf, python3-sphinx , zlib1g-dev Package-List: sideretro deb science optional arch=any Checksums-Sha1: 20a0572585b0b16ca71ed76b08b8fcbce3f33aca 2109112 sideretro_1.1.6.orig.tar.gz ded8eeaac08f4a3b1b857442d7bb1c8d9c396b24 7404 sideretro_1.1.6-2.debian.tar.xz Checksums-Sha256: 378b49030bef1627494c81bbd285d85f3b78843f691f68963bd6e703ae7bac20 2109112 sideretro_1.1.6.orig.tar.gz 7983353ab62b1d7c8f56a2fe6bacf59a9f710f8484883237f86cf9d8c0a4a6a2 7404 sideretro_1.1.6-2.debian.tar.xz Files: 2ee5b04044bcce8eda2bd8e5bfaa7ea9 2109112 sideretro_1.1.6.orig.tar.gz db19bfa56672d973269da32376814ae4 7404 sideretro_1.1.6-2.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQIzBAEBCgAdFiEEG4z2Vu87hEcvSPDngvv3BgsvfQAFAmfYZnEACgkQgvv3Bgsv fQA0Gw//SsDgUjUe//hxajGNFleALjSE5hEhO8FB6Dy2toTTLerprNBsdt5u7Khn 6BHVZPayyf1GOeDQdQNgttDr1VxekmO/seX6ajCkIkBCcpI17QE00NxUgXsX0bt5 RpJOeWwBFeX1DYLpaaSLXaHRiy+15iFCX5R2YHAfTjhf5yRMOBlwAq9DzKAdFWH9 xIrv6SKp7jMoaC3tjUg2xprZLTK18NQXZNufXVuPcfexxp1VZ2ZptpfvUvkeRvan YpMF/J/jMhtPHYwkhVyNWCd4nEp+cfspEGpw7fXpeiox6qlS10T++KxlnAHZf/Uy FVs9YqpDhpZss7kG9KJi9pN7WKoxsMERIMMvr/k2xDTTe0OPPjI5CACcxb9lr2F4 UUmwlSWscdm3ixUN8NcTc2ablxuYbvXdCuF+a6xkee4S6zK75NHQffWETA/8vQ2i r6F3JNoG7IrLs+UjUMUtEhzVla8RNentifOsmkkmjkMauXBTMPSIbqxhk6wnonGR eId5cm+JIDbiUHaAiMoWhICTF6iFzUH1VExmO43UfLj1acAaFF+xMkbWs/9sH5FC K7JzGgoMU4F7dVtLiimgxcLM3qKLaE4KYz1fVLmvWdvxFCZ9TCILUJZZSy2HyYYI xGEb31HZ7beVTm6VCA2VWwK/tr7p/KT2Ql/z7pUPMUNLyHEYTI8= =3hou -----END PGP SIGNATURE----- Wed Sep 17 14:25:51 UTC 2025 I: Checking whether the package is not for us Wed Sep 17 14:25:51 UTC 2025 I: Starting 1st build on remote node codethink03-arm64.debian.net. Wed Sep 17 14:25:51 UTC 2025 I: Preparing to do remote build '1' on codethink03-arm64.debian.net. Wed Sep 17 14:25:51 UTC 2025 - checking /var/lib/jenkins/offline_nodes if codethink03-arm64.debian.net is marked as down. Wed Sep 17 14:25:51 UTC 2025 - checking via ssh if codethink03-arm64.debian.net is up. removed '/tmp/read-only-fs-test-yXH0yR' ==================================================================================== Tue Oct 20 20:48:52 UTC 2026 - running /srv/jenkins/bin/reproducible_build.sh (for job /srv/jenkins/bin/reproducible_build.sh) on codethink03-arm64, called using "1 sideretro forky /srv/reproducible-results/rbuild-debian/r-b-build.g8Ofgp54 1.1.6-2" as arguments. Tue Oct 20 20:48:52 UTC 2026 - actually running "reproducible_build.sh" (md5sum cc591790ab2c8e13f5e554202b95c89c) as "/tmp/jenkins-script-JT3t35Em" $ git clone https://salsa.debian.org/qa/jenkins.debian.net.git ; more CONTRIBUTING Tue Oct 20 20:48:52 UTC 2026 I: Downloading source for forky/sideretro=1.1.6-2 Reading package lists... NOTICE: 'sideretro' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/sideretro.git Please use: git clone https://salsa.debian.org/med-team/sideretro.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 2119 kB of source archives. Get:1 http://deb.debian.org/debian forky/main sideretro 1.1.6-2 (dsc) [2057 B] Get:2 http://deb.debian.org/debian forky/main sideretro 1.1.6-2 (tar) [2109 kB] Get:3 http://deb.debian.org/debian forky/main sideretro 1.1.6-2 (diff) [7404 B] Fetched 2119 kB in 0s (19.2 MB/s) Download complete and in download only mode Reading package lists... NOTICE: 'sideretro' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/sideretro.git Please use: git clone https://salsa.debian.org/med-team/sideretro.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 2119 kB of source archives. Get:1 http://deb.debian.org/debian forky/main sideretro 1.1.6-2 (dsc) [2057 B] Get:2 http://deb.debian.org/debian forky/main sideretro 1.1.6-2 (tar) [2109 kB] Get:3 http://deb.debian.org/debian forky/main sideretro 1.1.6-2 (diff) [7404 B] Fetched 2119 kB in 0s (19.2 MB/s) Download complete and in download only mode ============================================================================= Building sideretro in forky on arm64 on codethink03-arm64 now. Date: Tue Oct 20 21:48:52 BST 2026 Date UTC: Tue Oct 20 20:48:52 UTC 2026 ============================================================================= W: /root/.pbuilderrc does not exist I: Logging to b1/build.log I: pbuilder: network access will be disabled during build I: Current time: Tue Oct 20 08:48:52 -12 2026 I: pbuilder-time-stamp: 1792529332 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 [sideretro_1.1.6-2.dsc] I: copying [./sideretro_1.1.6.orig.tar.gz] I: copying [./sideretro_1.1.6-2.debian.tar.xz] I: Extracting source dpkg-source: warning: cannot verify inline signature for ./sideretro_1.1.6-2.dsc: no acceptable signature found dpkg-source: info: extracting sideretro in sideretro-1.1.6 dpkg-source: info: unpacking sideretro_1.1.6.orig.tar.gz dpkg-source: info: unpacking sideretro_1.1.6-2.debian.tar.xz I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/889074/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='bfb530b2bf3f4db0bf06f6af5639e3c9' 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='889074' 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.g8Ofgp54/pbuilderrc_7AdG --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.g8Ofgp54/b1 --logfile b1/build.log sideretro_1.1.6-2.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 6.12.43+deb13-cloud-arm64 #1 SMP Debian 6.12.43-1 (2025-08-27) aarch64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Aug 10 2025 /bin -> usr/bin I: user script /srv/workspace/pbuilder/889074/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: check, cmake, debhelper-compat (= 13), libhts-dev, libsqlite3-dev, meson, pkgconf, python3-sphinx, 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 ... 20020 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 check; however: Package check is not installed. pbuilder-satisfydepends-dummy depends on cmake; however: Package cmake is not installed. pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on libhts-dev; however: Package libhts-dev is not installed. pbuilder-satisfydepends-dummy depends on libsqlite3-dev; however: Package libsqlite3-dev is not installed. pbuilder-satisfydepends-dummy depends on meson; however: Package meson is not installed. pbuilder-satisfydepends-dummy depends on pkgconf; however: Package pkgconf is not installed. pbuilder-satisfydepends-dummy depends on python3-sphinx; however: Package python3-sphinx 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} ca-certificates{a} check{a} cmake{a} cmake-data{a} comerr-dev{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} docutils-common{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} krb5-multidev{a} libarchive-zip-perl{a} libarchive13t64{a} libbrotli-dev{a} libbrotli1{a} libbz2-dev{a} libcom-err2{a} libcurl3t64-gnutls{a} libcurl4-gnutls-dev{a} libcurl4t64{a} libdebhelper-perl{a} libdeflate-dev{a} libdeflate0{a} libelf1t64{a} libevent-2.1-7t64{a} libexpat1{a} libffi8{a} libfile-stripnondeterminism-perl{a} libgmp-dev{a} libgmpxx4ldbl{a} libgnutls-dane0t64{a} libgnutls-openssl27t64{a} libgnutls28-dev{a} libgnutls30t64{a} libgssapi-krb5-2{a} libgssrpc4t64{a} libhts-dev{a} libhts3t64{a} libhtscodecs2{a} libidn2-0{a} libidn2-dev{a} libjs-sphinxdoc{a} libjson-perl{a} libjsoncpp26{a} libk5crypto3{a} libkadm5clnt-mit12{a} libkadm5srv-mit12{a} libkdb5-10t64{a} libkeyutils1{a} libkrb5-3{a} libkrb5-dev{a} libkrb5support0{a} libldap-dev{a} libldap2{a} liblzma-dev{a} libmagic-mgc{a} libmagic1t64{a} libnghttp2-14{a} libnghttp2-dev{a} libnghttp3-9{a} libnghttp3-dev{a} libngtcp2-16{a} libngtcp2-crypto-gnutls-dev{a} libngtcp2-crypto-gnutls8{a} libngtcp2-dev{a} libp11-kit-dev{a} libp11-kit0{a} libpipeline1{a} libpkgconf3{a} libproc2-0{a} libpsl-dev{a} libpsl5t64{a} libpython3-stdlib{a} libpython3.13-minimal{a} libpython3.13-stdlib{a} libreadline8t64{a} librhash1{a} librtmp-dev{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsqlite3-dev{a} libssh2-1-dev{a} libssh2-1t64{a} libssl-dev{a} libsubunit-dev{a} libsubunit0{a} libtasn1-6{a} libtasn1-6-dev{a} libtool{a} libuchardet0{a} libunbound8{a} libunistring5{a} libuv1t64{a} libxml2-16{a} libzstd-dev{a} m4{a} man-db{a} media-types{a} meson{a} netbase{a} nettle-dev{a} ninja-build{a} openssl{a} pkgconf{a} pkgconf-bin{a} po-debconf{a} procps{a} python-babel-localedata{a} python3{a} python3-alabaster{a} python3-autocommand{a} python3-babel{a} python3-certifi{a} python3-chardet{a} python3-charset-normalizer{a} python3-defusedxml{a} python3-docutils{a} python3-idna{a} python3-imagesize{a} python3-inflect{a} python3-jaraco.context{a} python3-jaraco.functools{a} python3-jaraco.text{a} python3-jinja2{a} python3-markupsafe{a} python3-minimal{a} python3-more-itertools{a} python3-packaging{a} python3-pkg-resources{a} python3-pygments{a} python3-requests{a} python3-roman{a} python3-roman-numerals{a} python3-setuptools{a} python3-snowballstemmer{a} python3-sphinx{a} python3-typeguard{a} python3-typing-extensions{a} python3-urllib3{a} python3-zipp{a} python3.13{a} python3.13-minimal{a} readline-common{a} sensible-utils{a} sgml-base{a} sphinx-common{a} tzdata{a} xml-core{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: bzip2-doc curl krb5-locales libarchive-cpio-perl libjson-xs-perl libldap-common libltdl-dev libmail-sendmail-perl libpaper-utils libsasl2-modules libtasn1-doc linux-sysctl-defaults lynx psmisc publicsuffix python3-pil wget 0 packages upgraded, 160 newly installed, 0 to remove and 0 not upgraded. Need to get 65.6 MB of archives. After unpacking 266 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian forky/main arm64 libexpat1 arm64 2.7.1-2 [93.3 kB] Get: 2 http://deb.debian.org/debian forky/main arm64 libpython3.13-minimal arm64 3.13.7-1 [857 kB] Get: 3 http://deb.debian.org/debian forky/main arm64 python3.13-minimal arm64 3.13.7-1 [2001 kB] Get: 4 http://deb.debian.org/debian forky/main arm64 python3-minimal arm64 3.13.7-1 [27.2 kB] Get: 5 http://deb.debian.org/debian forky/main arm64 media-types all 13.0.0 [29.3 kB] Get: 6 http://deb.debian.org/debian forky/main arm64 netbase all 6.5 [12.4 kB] Get: 7 http://deb.debian.org/debian forky/main arm64 tzdata all 2025b-5 [260 kB] Get: 8 http://deb.debian.org/debian forky/main arm64 libffi8 arm64 3.5.2-2 [21.5 kB] Get: 9 http://deb.debian.org/debian forky/main arm64 readline-common all 8.3-3 [74.8 kB] Get: 10 http://deb.debian.org/debian forky/main arm64 libreadline8t64 arm64 8.3-3 [169 kB] Get: 11 http://deb.debian.org/debian forky/main arm64 libpython3.13-stdlib arm64 3.13.7-1 [1895 kB] Get: 12 http://deb.debian.org/debian forky/main arm64 python3.13 arm64 3.13.7-1 [761 kB] Get: 13 http://deb.debian.org/debian forky/main arm64 libpython3-stdlib arm64 3.13.7-1 [10.2 kB] Get: 14 http://deb.debian.org/debian forky/main arm64 python3 arm64 3.13.7-1 [28.3 kB] Get: 15 http://deb.debian.org/debian forky/main arm64 libproc2-0 arm64 2:4.0.4-9 [62.8 kB] Get: 16 http://deb.debian.org/debian forky/main arm64 procps arm64 2:4.0.4-9 [871 kB] Get: 17 http://deb.debian.org/debian forky/main arm64 sensible-utils all 0.0.26 [27.0 kB] Get: 18 http://deb.debian.org/debian forky/main arm64 openssl arm64 3.5.2-1 [1457 kB] Get: 19 http://deb.debian.org/debian forky/main arm64 ca-certificates all 20250419 [162 kB] Get: 20 http://deb.debian.org/debian forky/main arm64 libmagic-mgc arm64 1:5.46-5 [338 kB] Get: 21 http://deb.debian.org/debian forky/main arm64 libmagic1t64 arm64 1:5.46-5 [103 kB] Get: 22 http://deb.debian.org/debian forky/main arm64 file arm64 1:5.46-5 [43.7 kB] Get: 23 http://deb.debian.org/debian forky/main arm64 gettext-base arm64 0.23.1-2+b1 [241 kB] Get: 24 http://deb.debian.org/debian forky/main arm64 libuchardet0 arm64 0.0.8-2 [69.0 kB] Get: 25 http://deb.debian.org/debian forky/main arm64 groff-base arm64 1.23.0-9 [1130 kB] Get: 26 http://deb.debian.org/debian forky/main arm64 bsdextrautils arm64 2.41.1-3 [98.1 kB] Get: 27 http://deb.debian.org/debian forky/main arm64 libpipeline1 arm64 1.5.8-1 [40.2 kB] Get: 28 http://deb.debian.org/debian forky/main arm64 man-db arm64 2.13.1-1 [1453 kB] Get: 29 http://deb.debian.org/debian forky/main arm64 m4 arm64 1.4.20-1 [316 kB] Get: 30 http://deb.debian.org/debian forky/main arm64 autoconf all 2.72-3.1 [494 kB] Get: 31 http://deb.debian.org/debian forky/main arm64 autotools-dev all 20240727.1 [60.2 kB] Get: 32 http://deb.debian.org/debian forky/main arm64 automake all 1:1.17-4 [862 kB] Get: 33 http://deb.debian.org/debian forky/main arm64 autopoint all 0.23.1-2 [770 kB] Get: 34 http://deb.debian.org/debian forky/main arm64 libsubunit0 arm64 1.4.2-3+b1 [6520 B] Get: 35 http://deb.debian.org/debian forky/main arm64 libsubunit-dev arm64 1.4.2-3+b1 [7416 B] Get: 36 http://deb.debian.org/debian forky/main arm64 check arm64 0.15.2-3 [112 kB] Get: 37 http://deb.debian.org/debian forky/main arm64 cmake-data all 4.1.1+really3.31.6-1 [2268 kB] Get: 38 http://deb.debian.org/debian forky/main arm64 libxml2-16 arm64 2.14.5+dfsg-0.2 [582 kB] Get: 39 http://deb.debian.org/debian forky/main arm64 libarchive13t64 arm64 3.7.4-4+b1 [323 kB] Get: 40 http://deb.debian.org/debian forky/main arm64 libbrotli1 arm64 1.1.0-2+b7 [308 kB] Get: 41 http://deb.debian.org/debian forky/main arm64 libkrb5support0 arm64 1.21.3-5 [32.4 kB] Get: 42 http://deb.debian.org/debian forky/main arm64 libcom-err2 arm64 1.47.2-3+b3 [24.9 kB] Get: 43 http://deb.debian.org/debian forky/main arm64 libk5crypto3 arm64 1.21.3-5 [81.2 kB] Get: 44 http://deb.debian.org/debian forky/main arm64 libkeyutils1 arm64 1.6.3-6 [9716 B] Get: 45 http://deb.debian.org/debian forky/main arm64 libkrb5-3 arm64 1.21.3-5 [308 kB] Get: 46 http://deb.debian.org/debian forky/main arm64 libgssapi-krb5-2 arm64 1.21.3-5 [127 kB] Get: 47 http://deb.debian.org/debian forky/main arm64 libunistring5 arm64 1.3-2 [453 kB] Get: 48 http://deb.debian.org/debian forky/main arm64 libidn2-0 arm64 2.3.8-4 [108 kB] Get: 49 http://deb.debian.org/debian forky/main arm64 libsasl2-modules-db arm64 2.1.28+dfsg1-9 [20.1 kB] Get: 50 http://deb.debian.org/debian forky/main arm64 libsasl2-2 arm64 2.1.28+dfsg1-9 [55.6 kB] Get: 51 http://deb.debian.org/debian forky/main arm64 libldap2 arm64 2.6.10+dfsg-1 [179 kB] Get: 52 http://deb.debian.org/debian forky/main arm64 libnghttp2-14 arm64 1.64.0-1.1+b1 [71.7 kB] Get: 53 http://deb.debian.org/debian forky/main arm64 libnghttp3-9 arm64 1.11.0-1 [66.7 kB] Get: 54 http://deb.debian.org/debian forky/main arm64 libpsl5t64 arm64 0.21.2-1.1+b1 [57.1 kB] Get: 55 http://deb.debian.org/debian forky/main arm64 libp11-kit0 arm64 0.25.5-3 [409 kB] Get: 56 http://deb.debian.org/debian forky/main arm64 libtasn1-6 arm64 4.20.0-2 [47.3 kB] Get: 57 http://deb.debian.org/debian forky/main arm64 libgnutls30t64 arm64 3.8.9-3 [1375 kB] Get: 58 http://deb.debian.org/debian forky/main arm64 librtmp1 arm64 2.4+20151223.gitfa8646d.1-3 [56.3 kB] Get: 59 http://deb.debian.org/debian forky/main arm64 libssh2-1t64 arm64 1.11.1-1 [235 kB] Get: 60 http://deb.debian.org/debian forky/main arm64 libcurl4t64 arm64 8.15.0-1 [360 kB] Get: 61 http://deb.debian.org/debian forky/main arm64 libjsoncpp26 arm64 1.9.6-4 [73.2 kB] Get: 62 http://deb.debian.org/debian forky/main arm64 librhash1 arm64 1.4.6-1 [131 kB] Get: 63 http://deb.debian.org/debian forky/main arm64 libuv1t64 arm64 1.51.0-2 [150 kB] Get: 64 http://deb.debian.org/debian forky/main arm64 cmake arm64 4.1.1+really3.31.6-1 [9905 kB] Get: 65 http://deb.debian.org/debian forky/main arm64 comerr-dev arm64 2.1-1.47.2-3+b3 [56.9 kB] Get: 66 http://deb.debian.org/debian forky/main arm64 libdebhelper-perl all 13.26 [91.8 kB] Get: 67 http://deb.debian.org/debian forky/main arm64 libtool all 2.5.4-5 [540 kB] Get: 68 http://deb.debian.org/debian forky/main arm64 dh-autoreconf all 20 [17.1 kB] Get: 69 http://deb.debian.org/debian forky/main arm64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 70 http://deb.debian.org/debian forky/main arm64 libfile-stripnondeterminism-perl all 1.15.0-1 [19.9 kB] Get: 71 http://deb.debian.org/debian forky/main arm64 dh-strip-nondeterminism all 1.15.0-1 [8812 B] Get: 72 http://deb.debian.org/debian forky/main arm64 libelf1t64 arm64 0.193-3 [189 kB] Get: 73 http://deb.debian.org/debian forky/main arm64 dwz arm64 0.16-2 [100 kB] Get: 74 http://deb.debian.org/debian forky/main arm64 gettext arm64 0.23.1-2+b1 [1612 kB] Get: 75 http://deb.debian.org/debian forky/main arm64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 76 http://deb.debian.org/debian forky/main arm64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 77 http://deb.debian.org/debian forky/main arm64 debhelper all 13.26 [939 kB] Get: 78 http://deb.debian.org/debian forky/main arm64 sgml-base all 1.31+nmu1 [10.9 kB] Get: 79 http://deb.debian.org/debian forky/main arm64 xml-core all 0.19 [20.1 kB] Get: 80 http://deb.debian.org/debian forky/main arm64 docutils-common all 0.21.2+dfsg-2 [128 kB] Get: 81 http://deb.debian.org/debian forky/main arm64 libgssrpc4t64 arm64 1.21.3-5 [57.2 kB] Get: 82 http://deb.debian.org/debian forky/main arm64 libkadm5clnt-mit12 arm64 1.21.3-5 [41.1 kB] Get: 83 http://deb.debian.org/debian forky/main arm64 libkdb5-10t64 arm64 1.21.3-5 [41.3 kB] Get: 84 http://deb.debian.org/debian forky/main arm64 libkadm5srv-mit12 arm64 1.21.3-5 [53.0 kB] Get: 85 http://deb.debian.org/debian forky/main arm64 krb5-multidev arm64 1.21.3-5 [126 kB] Get: 86 http://deb.debian.org/debian forky/main arm64 libbrotli-dev arm64 1.1.0-2+b7 [308 kB] Get: 87 http://deb.debian.org/debian forky/main arm64 libbz2-dev arm64 1.0.8-6 [31.9 kB] Get: 88 http://deb.debian.org/debian forky/main arm64 libngtcp2-16 arm64 1.15.1-1 [122 kB] Get: 89 http://deb.debian.org/debian forky/main arm64 libngtcp2-crypto-gnutls8 arm64 1.15.1-1 [18.6 kB] Get: 90 http://deb.debian.org/debian forky/main arm64 libcurl3t64-gnutls arm64 8.15.0-1 [355 kB] Get: 91 http://deb.debian.org/debian forky/main arm64 libevent-2.1-7t64 arm64 2.1.12-stable-10+b1 [170 kB] Get: 92 http://deb.debian.org/debian forky/main arm64 libunbound8 arm64 1.23.1-1 [561 kB] Get: 93 http://deb.debian.org/debian forky/main arm64 libgnutls-dane0t64 arm64 3.8.9-3 [453 kB] Get: 94 http://deb.debian.org/debian forky/main arm64 libgnutls-openssl27t64 arm64 3.8.9-3 [453 kB] Get: 95 http://deb.debian.org/debian forky/main arm64 libidn2-dev arm64 2.3.8-4 [102 kB] Get: 96 http://deb.debian.org/debian forky/main arm64 libp11-kit-dev arm64 0.25.5-3 [208 kB] Get: 97 http://deb.debian.org/debian forky/main arm64 libtasn1-6-dev arm64 4.20.0-2 [96.7 kB] Get: 98 http://deb.debian.org/debian forky/main arm64 libgmpxx4ldbl arm64 2:6.3.0+dfsg-5 [329 kB] Get: 99 http://deb.debian.org/debian forky/main arm64 libgmp-dev arm64 2:6.3.0+dfsg-5 [621 kB] Get: 100 http://deb.debian.org/debian forky/main arm64 nettle-dev arm64 3.10.1-1 [1325 kB] Get: 101 http://deb.debian.org/debian forky/main arm64 libgnutls28-dev arm64 3.8.9-3 [1416 kB] Get: 102 http://deb.debian.org/debian forky/main arm64 libkrb5-dev arm64 1.21.3-5 [16.1 kB] Get: 103 http://deb.debian.org/debian forky/main arm64 libldap-dev arm64 2.6.10+dfsg-1 [305 kB] Get: 104 http://deb.debian.org/debian forky/main arm64 libpkgconf3 arm64 1.8.1-4 [35.3 kB] Get: 105 http://deb.debian.org/debian forky/main arm64 pkgconf-bin arm64 1.8.1-4 [29.6 kB] Get: 106 http://deb.debian.org/debian forky/main arm64 pkgconf arm64 1.8.1-4 [26.1 kB] Get: 107 http://deb.debian.org/debian forky/main arm64 libnghttp2-dev arm64 1.64.0-1.1+b1 [112 kB] Get: 108 http://deb.debian.org/debian forky/main arm64 libnghttp3-dev arm64 1.11.0-1 [94.6 kB] Get: 109 http://deb.debian.org/debian forky/main arm64 libngtcp2-crypto-gnutls-dev arm64 1.15.1-1 [24.5 kB] Get: 110 http://deb.debian.org/debian forky/main arm64 libngtcp2-dev arm64 1.15.1-1 [179 kB] Get: 111 http://deb.debian.org/debian forky/main arm64 libpsl-dev arm64 0.21.2-1.1+b1 [77.9 kB] Get: 112 http://deb.debian.org/debian forky/main arm64 zlib1g-dev arm64 1:1.3.dfsg+really1.3.1-1+b1 [917 kB] Get: 113 http://deb.debian.org/debian forky/main arm64 librtmp-dev arm64 2.4+20151223.gitfa8646d.1-3 [173 kB] Get: 114 http://deb.debian.org/debian forky/main arm64 libssl-dev arm64 3.5.2-1 [3386 kB] Get: 115 http://deb.debian.org/debian forky/main arm64 libssh2-1-dev arm64 1.11.1-1 [388 kB] Get: 116 http://deb.debian.org/debian forky/main arm64 libzstd-dev arm64 1.5.7+dfsg-1.1 [335 kB] Get: 117 http://deb.debian.org/debian forky/main arm64 libcurl4-gnutls-dev arm64 8.15.0-1 [490 kB] Get: 118 http://deb.debian.org/debian forky/main arm64 libdeflate0 arm64 1.23-2 [42.4 kB] Get: 119 http://deb.debian.org/debian forky/main arm64 libdeflate-dev arm64 1.23-2 [51.3 kB] Get: 120 http://deb.debian.org/debian forky/main arm64 libhtscodecs2 arm64 1.6.1-2 [74.7 kB] Get: 121 http://deb.debian.org/debian forky/main arm64 libhts3t64 arm64 1.22.1+ds2-1 [434 kB] Get: 122 http://deb.debian.org/debian forky/main arm64 liblzma-dev arm64 5.8.1-1.1 [344 kB] Get: 123 http://deb.debian.org/debian forky/main arm64 libhts-dev arm64 1.22.1+ds2-1 [1684 kB] Get: 124 http://deb.debian.org/debian forky/main arm64 libjs-sphinxdoc all 8.2.3-6 [27.5 kB] Get: 125 http://deb.debian.org/debian forky/main arm64 libjson-perl all 4.10000-1 [87.5 kB] Get: 126 http://deb.debian.org/debian forky/main arm64 libsqlite3-dev arm64 3.46.1-8 [1098 kB] Get: 127 http://deb.debian.org/debian forky/main arm64 ninja-build arm64 1.12.1-1+b1 [130 kB] Get: 128 http://deb.debian.org/debian forky/main arm64 python3-autocommand all 2.2.2-3 [13.6 kB] Get: 129 http://deb.debian.org/debian forky/main arm64 python3-more-itertools all 10.8.0-1 [71.7 kB] Get: 130 http://deb.debian.org/debian forky/main arm64 python3-typing-extensions all 4.15.0-1 [92.4 kB] Get: 131 http://deb.debian.org/debian forky/main arm64 python3-typeguard all 4.4.4-1 [37.1 kB] Get: 132 http://deb.debian.org/debian forky/main arm64 python3-inflect all 7.5.0-1 [33.0 kB] Get: 133 http://deb.debian.org/debian forky/main arm64 python3-jaraco.context all 6.0.1-1 [8276 B] Get: 134 http://deb.debian.org/debian forky/main arm64 python3-jaraco.functools all 4.1.0-1 [12.0 kB] Get: 135 http://deb.debian.org/debian forky/main arm64 python3-pkg-resources all 78.1.1-0.1 [224 kB] Get: 136 http://deb.debian.org/debian forky/main arm64 python3-jaraco.text all 4.0.0-1 [11.4 kB] Get: 137 http://deb.debian.org/debian forky/main arm64 python3-zipp all 3.23.0-1 [11.0 kB] Get: 138 http://deb.debian.org/debian forky/main arm64 python3-setuptools all 78.1.1-0.1 [738 kB] Get: 139 http://deb.debian.org/debian forky/main arm64 meson all 1.9.0-1 [664 kB] Get: 140 http://deb.debian.org/debian forky/main arm64 python-babel-localedata all 2.17.0-1 [6050 kB] Get: 141 http://deb.debian.org/debian forky/main arm64 python3-alabaster all 0.7.16-0.1 [27.9 kB] Get: 142 http://deb.debian.org/debian forky/main arm64 python3-babel all 2.17.0-1 [117 kB] Get: 143 http://deb.debian.org/debian forky/main arm64 python3-certifi all 2025.1.31+ds-1 [9652 B] Get: 144 http://deb.debian.org/debian forky/main arm64 python3-chardet all 5.2.0+dfsg-2 [108 kB] Get: 145 http://deb.debian.org/debian forky/main arm64 python3-charset-normalizer arm64 3.4.3-1 [123 kB] Get: 146 http://deb.debian.org/debian forky/main arm64 python3-defusedxml all 0.7.1-3 [43.4 kB] Get: 147 http://deb.debian.org/debian forky/main arm64 python3-roman all 5.1-1 [11.0 kB] Get: 148 http://deb.debian.org/debian forky/main arm64 python3-docutils all 0.21.2+dfsg-2 [403 kB] Get: 149 http://deb.debian.org/debian forky/main arm64 python3-idna all 3.10-1 [42.0 kB] Get: 150 http://deb.debian.org/debian forky/main arm64 python3-imagesize all 1.4.1-1 [6688 B] Get: 151 http://deb.debian.org/debian forky/main arm64 python3-markupsafe arm64 2.1.5-1+b4 [14.1 kB] Get: 152 http://deb.debian.org/debian forky/main arm64 python3-jinja2 all 3.1.6-1 [107 kB] Get: 153 http://deb.debian.org/debian forky/main arm64 python3-packaging all 25.0-1 [56.6 kB] Get: 154 http://deb.debian.org/debian forky/main arm64 python3-pygments all 2.18.0+dfsg-2 [836 kB] Get: 155 http://deb.debian.org/debian forky/main arm64 python3-urllib3 all 2.5.0-1 [116 kB] Get: 156 http://deb.debian.org/debian forky/main arm64 python3-requests all 2.32.5+dfsg-1 [72.4 kB] Get: 157 http://deb.debian.org/debian forky/main arm64 python3-roman-numerals all 3.1.0-2 [8740 B] Get: 158 http://deb.debian.org/debian forky/main arm64 python3-snowballstemmer all 3.0.1-1 [63.5 kB] Get: 159 http://deb.debian.org/debian forky/main arm64 sphinx-common all 8.2.3-6 [619 kB] Get: 160 http://deb.debian.org/debian forky/main arm64 python3-sphinx all 8.2.3-6 [477 kB] Fetched 65.6 MB in 0s (262 MB/s) Preconfiguring packages ... Selecting previously unselected package libexpat1:arm64. (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 ... 20020 files and directories currently installed.) Preparing to unpack .../libexpat1_2.7.1-2_arm64.deb ... Unpacking libexpat1:arm64 (2.7.1-2) ... Selecting previously unselected package libpython3.13-minimal:arm64. Preparing to unpack .../libpython3.13-minimal_3.13.7-1_arm64.deb ... Unpacking libpython3.13-minimal:arm64 (3.13.7-1) ... Selecting previously unselected package python3.13-minimal. Preparing to unpack .../python3.13-minimal_3.13.7-1_arm64.deb ... Unpacking python3.13-minimal (3.13.7-1) ... Setting up libpython3.13-minimal:arm64 (3.13.7-1) ... Setting up libexpat1:arm64 (2.7.1-2) ... Setting up python3.13-minimal (3.13.7-1) ... Selecting previously unselected package python3-minimal. (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 ... 20354 files and directories currently installed.) Preparing to unpack .../0-python3-minimal_3.13.7-1_arm64.deb ... Unpacking python3-minimal (3.13.7-1) ... Selecting previously unselected package media-types. Preparing to unpack .../1-media-types_13.0.0_all.deb ... Unpacking media-types (13.0.0) ... Selecting previously unselected package netbase. Preparing to unpack .../2-netbase_6.5_all.deb ... Unpacking netbase (6.5) ... Selecting previously unselected package tzdata. Preparing to unpack .../3-tzdata_2025b-5_all.deb ... Unpacking tzdata (2025b-5) ... Selecting previously unselected package libffi8:arm64. Preparing to unpack .../4-libffi8_3.5.2-2_arm64.deb ... Unpacking libffi8:arm64 (3.5.2-2) ... Selecting previously unselected package readline-common. Preparing to unpack .../5-readline-common_8.3-3_all.deb ... Unpacking readline-common (8.3-3) ... Selecting previously unselected package libreadline8t64:arm64. Preparing to unpack .../6-libreadline8t64_8.3-3_arm64.deb ... Adding 'diversion of /lib/aarch64-linux-gnu/libhistory.so.8 to /lib/aarch64-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/aarch64-linux-gnu/libhistory.so.8.2 to /lib/aarch64-linux-gnu/libhistory.so.8.2.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/aarch64-linux-gnu/libreadline.so.8 to /lib/aarch64-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/aarch64-linux-gnu/libreadline.so.8.2 to /lib/aarch64-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64' Unpacking libreadline8t64:arm64 (8.3-3) ... Selecting previously unselected package libpython3.13-stdlib:arm64. Preparing to unpack .../7-libpython3.13-stdlib_3.13.7-1_arm64.deb ... Unpacking libpython3.13-stdlib:arm64 (3.13.7-1) ... Selecting previously unselected package python3.13. Preparing to unpack .../8-python3.13_3.13.7-1_arm64.deb ... Unpacking python3.13 (3.13.7-1) ... 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Setting up dh-autoreconf (20) ... Setting up ca-certificates (20250419) ... Updating certificates in /etc/ssl/certs... 150 added, 0 removed; done. Setting up libldap-dev:arm64 (2.6.10+dfsg-1) ... Setting up sphinx-common (8.2.3-6) ... Setting up libp11-kit0:arm64 (0.25.5-3) ... Setting up check:arm64 (0.15.2-3) ... Setting up libgssapi-krb5-2:arm64 (1.21.3-5) ... Setting up libssh2-1-dev:arm64 (1.11.1-1) ... Setting up libidn2-dev:arm64 (2.3.8-4) ... Setting up libreadline8t64:arm64 (8.3-3) ... Setting up dh-strip-nondeterminism (1.15.0-1) ... Setting up groff-base (1.23.0-9) ... Setting up xml-core (0.19) ... Setting up libpython3.13-stdlib:arm64 (3.13.7-1) ... Setting up libp11-kit-dev:arm64 (0.25.5-3) ... Setting up libpython3-stdlib:arm64 (3.13.7-1) ... Setting up libgnutls30t64:arm64 (3.8.9-3) ... Setting up libgnutls-openssl27t64:arm64 (3.8.9-3) ... Setting up libnghttp2-dev:arm64 (1.64.0-1.1+b1) ... Setting up python3.13 (3.13.7-1) ... Setting up po-debconf (1.0.21+nmu1) ... 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Setting up libngtcp2-crypto-gnutls8:arm64 (1.15.1-1) ... Setting up libkadm5clnt-mit12:arm64 (1.21.3-5) ... Setting up python3-imagesize (1.4.1-1) ... Setting up libgnutls28-dev:arm64 (3.8.9-3) ... Setting up python3-more-itertools (10.8.0-1) ... Setting up python3-jaraco.functools (4.1.0-1) ... Setting up python3-jaraco.context (6.0.1-1) ... Setting up libcurl4t64:arm64 (8.15.0-1) ... Setting up libkdb5-10t64:arm64 (1.21.3-5) ... Setting up python3-babel (2.17.0-1) ... update-alternatives: using /usr/bin/pybabel-python3 to provide /usr/bin/pybabel (pybabel) in auto mode Setting up python3-defusedxml (0.7.1-3) ... Setting up python3-charset-normalizer (3.4.3-1) ... Setting up python3-alabaster (0.7.16-0.1) ... Setting up python3-typeguard (4.4.4-1) ... Setting up libcurl3t64-gnutls:arm64 (8.15.0-1) ... Setting up debhelper (13.26) ... Setting up libngtcp2-crypto-gnutls-dev:arm64 (1.15.1-1) ... Setting up python3-inflect (7.5.0-1) ... Setting up python3-jaraco.text (4.0.0-1) ... Setting up python3-requests (2.32.5+dfsg-1) ... Setting up librtmp-dev:arm64 (2.4+20151223.gitfa8646d.1-3) ... Setting up libkadm5srv-mit12:arm64 (1.21.3-5) ... Setting up cmake (4.1.1+really3.31.6-1) ... Setting up libhts3t64:arm64 (1.22.1+ds2-1) ... Setting up krb5-multidev:arm64 (1.21.3-5) ... Setting up python3-pkg-resources (78.1.1-0.1) ... Setting up python3-setuptools (78.1.1-0.1) ... Setting up meson (1.9.0-1) ... Setting up libkrb5-dev:arm64 (1.21.3-5) ... Setting up libcurl4-gnutls-dev:arm64 (8.15.0-1) ... Setting up libhts-dev:arm64 (1.22.1+ds2-1) ... Processing triggers for libc-bin (2.41-12) ... Processing triggers for sgml-base (1.31+nmu1) ... Setting up docutils-common (0.21.2+dfsg-2) ... Processing triggers for sgml-base (1.31+nmu1) ... Setting up python3-docutils (0.21.2+dfsg-2) ... Setting up python3-sphinx (8.2.3-6) ... Processing triggers for ca-certificates (20250419) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. 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/sideretro-1.1.6/ && 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 > ../sideretro_1.1.6-2_source.changes dpkg-buildpackage: info: source package sideretro dpkg-buildpackage: info: source version 1.1.6-2 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Daniela Moreira Mombach dpkg-source --before-build . dpkg-buildpackage: info: host architecture arm64 debian/rules clean dh clean dh_clean debian/rules binary dh binary dh_update_autotools_config dh_autoreconf dh_auto_configure cd obj-aarch64-linux-gnu && DEB_PYTHON_INSTALL_LAYOUT=deb LC_ALL=C.UTF-8 meson setup .. --wrap-mode=nodownload --buildtype=plain --prefix=/usr --sysconfdir=/etc --localstatedir=/var --libdir=lib/aarch64-linux-gnu -Dpython.bytecompile=-1 The Meson build system Version: 1.9.0 Source dir: /build/reproducible-path/sideretro-1.1.6 Build dir: /build/reproducible-path/sideretro-1.1.6/obj-aarch64-linux-gnu Build type: native build Project name: sideRETRO Project version: 1.1.6 C compiler for the host machine: cc (gcc 15.2.0 "cc (Debian 15.2.0-3) 15.2.0") C linker for the host machine: cc ld.bfd 2.45 Host machine cpu family: aarch64 Host machine cpu: aarch64 Configuring config.h.in using configuration Library m found: YES Library dl found: YES Run-time dependency threads found: YES Found pkg-config: YES (/usr/bin/pkg-config) 1.8.1 Run-time dependency zlib found: YES 1.3.1 Run-time dependency sqlite3 found: YES 3.46.1 Run-time dependency htslib found: YES 1.22.1 Run-time dependency check found: YES 0.15.2 Program sphinx-build found: YES (/usr/bin/sphinx-build) Message: Generate man page alongside the executable Build targets in project: 5 sideRETRO 1.1.6 User defined options buildtype : plain libdir : lib/aarch64-linux-gnu localstatedir : /var prefix : /usr python.bytecompile: -1 sysconfdir : /etc wrap_mode : nodownload Found ninja-1.12.1 at /usr/bin/ninja dh_auto_build cd obj-aarch64-linux-gnu && LC_ALL=C.UTF-8 ninja -j12 -v [1/70] /usr/bin/meson --internal vcstagger config.h.in config.h 1.1.6 /build/reproducible-path/sideretro-1.1.6 @version@ '(.*)' git describe --tags --dirty=+ [2/70] cc -Isrc/libsider.a.p -Isrc -I../src -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -MD -MQ src/libsider.a.p/chr.c.o -MF src/libsider.a.p/chr.c.o.d -o src/libsider.a.p/chr.c.o -c ../src/chr.c [3/70] cc 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src/libsider.a.p/db_merge.c.o -MF src/libsider.a.p/db_merge.c.o.d -o src/libsider.a.p/db_merge.c.o -c ../src/db_merge.c [5/70] cc -Isrc/libsider.a.p -Isrc -I../src -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -MD -MQ src/libsider.a.p/dbscan.c.o -MF src/libsider.a.p/dbscan.c.o.d -o src/libsider.a.p/dbscan.c.o -c ../src/dbscan.c [6/70] cc -Isrc/libsider.a.p -Isrc -I../src -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat 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tests/check_sider.p/check_sider_blacklist.c.o -MF tests/check_sider.p/check_sider_blacklist.c.o.d -o tests/check_sider.p/check_sider_blacklist.c.o -c ../tests/check_sider_blacklist.c [41/70] rm -f src/libsider.a && gcc-ar csrDT src/libsider.a src/libsider.a.p/abnormal.c.o src/libsider.a.p/array.c.o src/libsider.a.p/bed.c.o src/libsider.a.p/bitree.c.o src/libsider.a.p/blacklist.c.o src/libsider.a.p/chr.c.o src/libsider.a.p/cluster.c.o src/libsider.a.p/correlation.c.o src/libsider.a.p/db.c.o src/libsider.a.p/db_merge.c.o src/libsider.a.p/dbscan.c.o src/libsider.a.p/dedup.c.o src/libsider.a.p/exon.c.o src/libsider.a.p/fasta.c.o src/libsider.a.p/genotype.c.o src/libsider.a.p/gff.c.o src/libsider.a.p/gz.c.o src/libsider.a.p/hash.c.o src/libsider.a.p/ibitree.c.o src/libsider.a.p/io.c.o src/libsider.a.p/list.c.o src/libsider.a.p/log.c.o src/libsider.a.p/logger.c.o src/libsider.a.p/make_vcf.c.o src/libsider.a.p/merge_call.c.o src/libsider.a.p/process_sample.c.o src/libsider.a.p/retrocopy.c.o src/libsider.a.p/sam.c.o src/libsider.a.p/set.c.o src/libsider.a.p/str.c.o src/libsider.a.p/thpool.c.o src/libsider.a.p/utils.c.o src/libsider.a.p/vcf.c.o src/libsider.a.p/wrapper.c.o [42/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_correlation.c.o -MF tests/check_sider.p/check_sider_correlation.c.o.d -o tests/check_sider.p/check_sider_correlation.c.o -c ../tests/check_sider_correlation.c [43/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_dedup.c.o -MF tests/check_sider.p/check_sider_dedup.c.o.d -o tests/check_sider.p/check_sider_dedup.c.o -c ../tests/check_sider_dedup.c [44/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_abnormal.c.o -MF tests/check_sider.p/check_sider_abnormal.c.o.d -o tests/check_sider.p/check_sider_abnormal.c.o -c ../tests/check_sider_abnormal.c [45/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_db_merge.c.o -MF tests/check_sider.p/check_sider_db_merge.c.o.d -o tests/check_sider.p/check_sider_db_merge.c.o -c ../tests/check_sider_db_merge.c [46/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong 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tests/check_sider.p/check_sider_genotype.c.o -MF tests/check_sider.p/check_sider_genotype.c.o.d -o tests/check_sider.p/check_sider_genotype.c.o -c ../tests/check_sider_genotype.c [50/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_db.c.o -MF tests/check_sider.p/check_sider_db.c.o.d -o tests/check_sider.p/check_sider_db.c.o -c ../tests/check_sider_db.c [51/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration 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-Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_io.c.o -MF tests/check_sider.p/check_sider_io.c.o.d -o tests/check_sider.p/check_sider_io.c.o -c ../tests/check_sider_io.c [54/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 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/usr/bin/sphinx-build -b man /build/reproducible-path/sideretro-1.1.6/docs /build/reproducible-path/sideretro-1.1.6/obj-aarch64-linux-gnu/docs Running Sphinx v8.2.3 WARNING: Invalid configuration value found: 'language = None'. Update your configuration to a valid language code. Falling back to 'en' (English). loading translations [en]... done Converting `source_suffix = '.rst'` to `source_suffix = {'.rst': 'restructuredtext'}`. building [mo]: targets for 0 po files that are out of date writing output... building [man]: all manpages updating environment: [new config] 8 added, 0 changed, 0 removed reading sources... [ 12%] authors reading sources... [ 25%] index reading sources... [ 38%] install reading sources... [ 50%] intro reading sources... [ 62%] method reading sources... [ 75%] result reading sources... [ 88%] retrocopy reading sources... [100%] usage looking for now-outdated files... none found pickling environment... done checking consistency... /build/reproducible-path/sideretro-1.1.6/docs/index.rst: WARNING: document isn't included in any toctree [toc.not_included] done preparing documents... done copying assets... copying assets: done writing... sider.1 { } done build succeeded, 2 warnings. The manual pages are in docs. [64/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_vcf.c.o -MF tests/check_sider.p/check_sider_vcf.c.o.d -o tests/check_sider.p/check_sider_vcf.c.o -c ../tests/check_sider_vcf.c [65/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_str.c.o -MF tests/check_sider.p/check_sider_str.c.o.d -o tests/check_sider.p/check_sider_str.c.o -c ../tests/check_sider_str.c [66/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_set.c.o -MF tests/check_sider.p/check_sider_set.c.o.d -o tests/check_sider.p/check_sider_set.c.o -c ../tests/check_sider_set.c [67/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_wrapper.c.o -MF tests/check_sider.p/check_sider_wrapper.c.o.d -o tests/check_sider.p/check_sider_wrapper.c.o -c ../tests/check_sider_wrapper.c ../tests/check_sider_wrapper.c: In function ‘test_xfprintf_fn’: ../tests/check_sider_wrapper.c:281:9: warning: ignoring return value of ‘fread’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 281 | fread (buf, sizeof (char), str_size, fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../tests/check_sider_wrapper.c: In function ‘test_xfflush_fn’: ../tests/check_sider_wrapper.c:180:9: warning: ignoring return value of ‘fread’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 180 | fread (buf, sizeof (char), str_size, fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [68/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_hash.c.o -MF tests/check_sider.p/check_sider_hash.c.o.d -o tests/check_sider.p/check_sider_hash.c.o -c ../tests/check_sider_hash.c [69/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_utils.c.o -MF tests/check_sider.p/check_sider_utils.c.o.d -o tests/check_sider.p/check_sider_utils.c.o -c ../tests/check_sider_utils.c [70/70] cc -o tests/check_sider tests/check_sider.p/check_sider_abnormal.c.o tests/check_sider.p/check_sider_array.c.o tests/check_sider.p/check_sider_bed.c.o tests/check_sider.p/check_sider_bitree.c.o tests/check_sider.p/check_sider_blacklist.c.o tests/check_sider.p/check_sider_chr.c.o tests/check_sider.p/check_sider_cluster.c.o tests/check_sider.p/check_sider_correlation.c.o tests/check_sider.p/check_sider_db.c.o tests/check_sider.p/check_sider_db_merge.c.o tests/check_sider.p/check_sider_dbscan.c.o tests/check_sider.p/check_sider_dedup.c.o tests/check_sider.p/check_sider_exon.c.o tests/check_sider.p/check_sider_fasta.c.o tests/check_sider.p/check_sider_genotype.c.o tests/check_sider.p/check_sider_gff.c.o tests/check_sider.p/check_sider_gz.c.o tests/check_sider.p/check_sider_hash.c.o tests/check_sider.p/check_sider_ibitree.c.o tests/check_sider.p/check_sider_io.c.o tests/check_sider.p/check_sider_list.c.o tests/check_sider.p/check_sider_main.c.o tests/check_sider.p/check_sider_process_sample.c.o tests/check_sider.p/check_sider_retrocopy.c.o tests/check_sider.p/check_sider_sam.c.o tests/check_sider.p/check_sider_set.c.o tests/check_sider.p/check_sider_str.c.o tests/check_sider.p/check_sider_utils.c.o tests/check_sider.p/check_sider_vcf.c.o tests/check_sider.p/check_sider_wrapper.c.o -Wl,--as-needed -Wl,--no-undefined -Wl,-z,relro -Wl,-z,now -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,--start-group src/libsider.a -pthread /usr/lib/aarch64-linux-gnu/libsqlite3.so /usr/lib/aarch64-linux-gnu/libhts.so /usr/lib/aarch64-linux-gnu/libz.so -lm -ldl /usr/lib/aarch64-linux-gnu/libcheck_pic.a -lrt /usr/lib/aarch64-linux-gnu/libsubunit.so -Wl,--end-group dh_auto_test cd obj-aarch64-linux-gnu && DEB_PYTHON_INSTALL_LAYOUT=deb LC_ALL=C.UTF-8 MESON_TESTTHREADS=12 meson test --verbose ninja: Entering directory `/build/reproducible-path/sideretro-1.1.6/obj-aarch64-linux-gnu' [1/65] Generating config.h with a custom command 1/1 all RUNNING >>> ASAN_OPTIONS=halt_on_error=1:abort_on_error=1:print_summary=1 MALLOC_PERTURB_=169 UBSAN_OPTIONS=halt_on_error=1:abort_on_error=1:print_summary=1:print_stacktrace=1 MSAN_OPTIONS=halt_on_error=1:abort_on_error=1:print_summary=1:print_stacktrace=1 MESON_TEST_ITERATION=1 /build/reproducible-path/sideretro-1.1.6/obj-aarch64-linux-gnu/tests/check_sider ――――――――――――――――――――――――――――――――――――― ✀ ――――――――――――――――――――――――――――――――――――― Running suite(s): ProcessSample ok 1 - ../tests/check_sider_process_sample.c:Core:test_sider: Passed List ok 2 - ../tests/check_sider_list.c:Core:test_list_new: Passed ok 3 - ../tests/check_sider_list.c:Core:test_list_ins_prev: Passed ok 4 - ../tests/check_sider_list.c:Core:test_list_ins_next: Passed ok 5 - ../tests/check_sider_list.c:Core:test_list_ins_prev_link: Passed ok 6 - ../tests/check_sider_list.c:Core:test_list_ins_next_link: Passed ok 7 - ../tests/check_sider_list.c:Core:test_list_remove: Passed ok 8 - ../tests/check_sider_list.c:Core:test_list_remove_link: Passed ok 9 - ../tests/check_sider_list.c:Core:test_list_foreach: Passed Hash ok 10 - ../tests/check_sider_hash.c:Core:test_hash_free: Passed ok 11 - ../tests/check_sider_hash.c:Core:test_hash_insert: Passed ok 12 - ../tests/check_sider_hash.c:Core:test_hash_lookup: Passed ok 13 - ../tests/check_sider_hash.c:Core:test_hash_replace: Passed ok 14 - ../tests/check_sider_hash.c:Core:test_hash_remove: Passed ok 15 - ../tests/check_sider_hash.c:Core:test_hash_contains: Passed ok 16 - ../tests/check_sider_hash.c:Core:test_hash_int: Passed ok 17 - ../tests/check_sider_hash.c:Core:test_hash_direct: Passed ok 18 - ../tests/check_sider_hash.c:Core:test_hash_many_insertions: Passed ok 19 - ../tests/check_sider_hash.c:Misc:test_hash_foreach: Passed ok 20 - ../tests/check_sider_hash.c:Misc:test_hash_iter: Passed ok 21 - ../tests/check_sider_hash.c:Misc:test_hash_get_keys_as_list: Passed ok 22 - ../tests/check_sider_hash.c:Misc:test_hash_get_values_as_list: Passed ok 23 - ../tests/check_sider_hash.c:Misc:test_hash_get_keys_as_array: Passed ok 24 - ../tests/check_sider_hash.c:Misc:test_hash_get_values_as_array: Passed Array ok 25 - ../tests/check_sider_array.c:CoreFree:test_array: Passed ok 26 - ../tests/check_sider_array.c:CoreFree:test_array_uniq: Passed ok 27 - ../tests/check_sider_array.c:CoreFree:test_array_find_with_equal_fun: Passed ok 28 - ../tests/check_sider_array.c:CoreNull:test_array_find: Passed ok 29 - ../tests/check_sider_array.c:CoreNull:test_array_remove: Passed ok 30 - ../tests/check_sider_array.c:CoreNull:test_array_remove_index: Passed ok 31 - ../tests/check_sider_array.c:Free:test_array_no_free_segment: Passed Utils ok 32 - ../tests/check_sider_utils.c:Core:test_fequal: Passed ok 33 - ../tests/check_sider_utils.c:Core:test_equalstring: Passed ok 34 - ../tests/check_sider_utils.c:Core:test_casequalstring: Passed ok 35 - ../tests/check_sider_utils.c:Core:test_cmpstringp: Passed ok 36 - ../tests/check_sider_utils.c:Core:test_casecmpstringp: Passed ok 37 - ../tests/check_sider_utils.c:Core:test_chomp: Passed ok 38 - ../tests/check_sider_utils.c:Core:test_trimc: Passed ok 39 - ../tests/check_sider_utils.c:Core:test_trim: Passed ok 40 - ../tests/check_sider_utils.c:Core:test_upper: Passed ok 41 - ../tests/check_sider_utils.c:Core:test_lower: Passed ok 42 - ../tests/check_sider_utils.c:Core:test_path_dir: Passed ok 43 - ../tests/check_sider_utils.c:Core:test_path_file: Passed ok 44 - ../tests/check_sider_utils.c:Core:test_which: Passed ok 45 - ../tests/check_sider_utils.c:Core:test_exists: Passed ok 46 - ../tests/check_sider_utils.c:Core:test_xstrdup_concat: Passed ok 47 - ../tests/check_sider_utils.c:Core:test_xasprintf_concat: Passed ok 48 - ../tests/check_sider_utils.c:Core:test_mkdir_p: Passed ok 49 - ../tests/check_sider_utils.c:Core:test_setup_signal: Passed ok 50 - ../tests/check_sider_utils.c:Core:test_buf_expand: Passed ok 51 - ../tests/check_sider_utils.c:Core:test_entry_size: Passed SAM ok 52 - ../tests/check_sider_sam.c:Core:test_sam_to_bam: Passed ok 53 - ../tests/check_sider_sam.c:Core:test_sam_to_bam_fp: Passed ok 54 - ../tests/check_sider_sam.c:Core:test_sam_test_sorted_order: Passed BiTree ok 55 - ../tests/check_sider_bitree.c:Core:test_bitree: Passed IBiTree ok 56 - ../tests/check_sider_ibitree.c:Core:test_ibitree_insert: Passed ok 57 - ../tests/check_sider_ibitree.c:Core:test_ibitree_lookup: Passed ok 58 - ../tests/check_sider_ibitree.c:Core:test_ibitree_lookup_frac: Passed ok 59 - ../tests/check_sider_ibitree.c:Core:test_ibitree_lookup_either: Passed String ok 60 - ../tests/check_sider_str.c:Core:test_string_new: Passed ok 61 - ../tests/check_sider_str.c:Core:test_string_sized_new: Passed ok 62 - ../tests/check_sider_str.c:Core:test_string_set: Passed ok 63 - ../tests/check_sider_str.c:Core:test_string_concat: Passed ok 64 - ../tests/check_sider_str.c:Core:test_string_printf: Passed ok 65 - ../tests/check_sider_str.c:Core:test_string_concat_printf: Passed ok 66 - ../tests/check_sider_str.c:Core:test_string_free: Passed ok 67 - ../tests/check_sider_str.c:Core:test_string_clear: Passed DB ok 68 - ../tests/check_sider_db.c:Core:test_db_open: Passed ok 69 - ../tests/check_sider_db.c:Core:test_db_exec: Passed ok 70 - ../tests/check_sider_db.c:Core:test_db_prepare: Passed ok 71 - ../tests/check_sider_db.c:Core:test_db_schema: Passed ok 72 - ../tests/check_sider_db.c:Abort:test_db_open_abort: Passed ok 73 - ../tests/check_sider_db.c:Abort:test_db_close_abort: Passed ok 74 - ../tests/check_sider_db.c:Abort:test_db_exec_abort: Passed ok 75 - ../tests/check_sider_db.c:Abort:test_db_prepare_abort: Passed ok 76 - ../tests/check_sider_db.c:Abort:test_db_step_abort: Passed ok 77 - ../tests/check_sider_db.c:Abort:test_db_reset_abort: Passed ok 78 - ../tests/check_sider_db.c:Abort:test_db_bind_int_abort: Passed ok 79 - ../tests/check_sider_db.c:Abort:test_db_bind_int64_abort: Passed ok 80 - ../tests/check_sider_db.c:Abort:test_db_bind_double_abort: Passed ok 81 - ../tests/check_sider_db.c:Abort:test_db_bind_text_abort: Passed ok 82 - ../tests/check_sider_db.c:Abort:test_db_column_int_abort: Passed ok 83 - ../tests/check_sider_db.c:Abort:test_db_column_int64_abort: Passed ok 84 - ../tests/check_sider_db.c:Abort:test_db_column_double_abort: Passed ok 85 - ../tests/check_sider_db.c:Abort:test_db_column_text_abort: Passed Chr ok 86 - ../tests/check_sider_chr.c:Core:test_chr_std_lookup: Passed Exon ok 87 - ../tests/check_sider_exon.c:Core:test_exon_tree_index_dump: Passed ok 88 - ../tests/check_sider_exon.c:Core:test_exon_tree_lookup_dump: Passed Abnormal ok 89 - ../tests/check_sider_abnormal.c:Core:test_abnormal_filter_sorted: Passed ok 90 - ../tests/check_sider_abnormal.c:Core:test_abnormal_filter_unsorted: Passed GFF ok 91 - ../tests/check_sider_gff.c:Core:test_gff_header: Passed ok 92 - ../tests/check_sider_gff.c:Core:test_gff_read: Passed ok 93 - ../tests/check_sider_gff.c:Core:test_gff_filter: Passed ok 94 - ../tests/check_sider_gff.c:Core:test_gff_looks_like_gff_file: Passed ok 95 - ../tests/check_sider_gff.c:Abort:test_open_fatal: Passed ok 96 - ../tests/check_sider_gff.c:Abort:test_seqname_fatal: Passed ok 97 - ../tests/check_sider_gff.c:Abort:test_source_fatal: Passed ok 98 - ../tests/check_sider_gff.c:Abort:test_feature_fatal: Passed ok 99 - ../tests/check_sider_gff.c:Abort:test_start_fatal: Passed ok 100 - ../tests/check_sider_gff.c:Abort:test_end_fatal: Passed ok 101 - ../tests/check_sider_gff.c:Abort:test_score_fatal: Passed ok 102 - ../tests/check_sider_gff.c:Abort:test_strand_fatal: Passed ok 103 - ../tests/check_sider_gff.c:Abort:test_frame_fatal: Passed ok 104 - ../tests/check_sider_gff.c:Abort:test_key_value_fatal: Passed ok 105 - ../tests/check_sider_gff.c:Abort:test_close_fatal: Passed IO ok 106 - ../tests/check_sider_io.c:Core:test_read_file_lines: Passed DBSCAN ok 107 - ../tests/check_sider_dbscan.c:Core:test_dbscan: Passed Cluster ok 108 - ../tests/check_sider_cluster.c:Core:test_cluster_without_genotype_support: Passed ok 109 - ../tests/check_sider_cluster.c:Core:test_cluster_with_genotype_support: Passed Wrapper ok 110 - ../tests/check_sider_wrapper.c:Core:test_xmalloc: Passed ok 111 - ../tests/check_sider_wrapper.c:Core:test_xcalloc: Passed ok 112 - ../tests/check_sider_wrapper.c:Core:test_xrealloc: Passed ok 113 - ../tests/check_sider_wrapper.c:Core:test_xstrdup: Passed ok 114 - ../tests/check_sider_wrapper.c:Core:test_xfree: Passed ok 115 - ../tests/check_sider_wrapper.c:Core:test_xfopen: Passed ok 116 - ../tests/check_sider_wrapper.c:Core:test_xfdopen: Passed ok 117 - ../tests/check_sider_wrapper.c:Core:test_xfclose: Passed ok 118 - ../tests/check_sider_wrapper.c:Core:test_xfflush: Passed ok 119 - ../tests/check_sider_wrapper.c:Core:test_xpopen: Passed ok 120 - ../tests/check_sider_wrapper.c:Core:test_xmkdir: Passed ok 121 - ../tests/check_sider_wrapper.c:Core:test_xasprintf: Passed ok 122 - ../tests/check_sider_wrapper.c:Core:test_xfprintf: Passed ok 123 - ../tests/check_sider_wrapper.c:Core:test_xsigaction: Passed ok 124 - ../tests/check_sider_wrapper.c:Abort:test_xfopen_rw_abort: Passed ok 125 - ../tests/check_sider_wrapper.c:Abort:test_xfopen_w_abort: Passed ok 126 - ../tests/check_sider_wrapper.c:Abort:test_xfopen_r_abort: Passed ok 127 - ../tests/check_sider_wrapper.c:Abort:test_xfdopen_rw_abort: Passed ok 128 - ../tests/check_sider_wrapper.c:Abort:test_xfdopen_w_abort: Passed ok 129 - ../tests/check_sider_wrapper.c:Abort:test_xfdopen_r_abort: Passed ok 130 - ../tests/check_sider_wrapper.c:Abort:test_xmkdir_abort: Passed ok 131 - ../tests/check_sider_wrapper.c:Abort:test_xsigaction_abort: Passed ok 132 - ../tests/check_sider_wrapper.c:Abort:test_xpopen_r_abort: Passed ok 133 - ../tests/check_sider_wrapper.c:Abort:test_xpopen_w_abort: Passed DBMerge ok 134 - ../tests/check_sider_db_merge.c:Core:test_db_merge: Passed ok 135 - ../tests/check_sider_db_merge.c:Core:test_db_merge_in_line: Passed Set ok 136 - ../tests/check_sider_set.c:Core:test_set_free: Passed ok 137 - ../tests/check_sider_set.c:Core:test_set_insert: Passed ok 138 - ../tests/check_sider_set.c:Core:test_set_remove: Passed ok 139 - ../tests/check_sider_set.c:Core:test_set_union: Passed ok 140 - ../tests/check_sider_set.c:Core:test_set_intersection: Passed ok 141 - ../tests/check_sider_set.c:Core:test_set_difference: Passed ok 142 - ../tests/check_sider_set.c:Core:test_set_is_subset: Passed ok 143 - ../tests/check_sider_set.c:Core:test_set_is_equal: Passed ok 144 - ../tests/check_sider_set.c:Core:test_set_is_member: Passed Correlation ok 145 - ../tests/check_sider_correlation.c:Core:test_pearson: Passed ok 146 - ../tests/check_sider_correlation.c:Core:test_spearman: Passed ok 147 - ../tests/check_sider_correlation.c:Core:test_spearman_eq: Passed ok 148 - ../tests/check_sider_correlation.c:Core:test_spearman_permutation_test: Passed BED ok 149 - ../tests/check_sider_bed.c:Core:test_bed_header: Passed ok 150 - ../tests/check_sider_bed.c:Core:test_beds: Passed ok 151 - ../tests/check_sider_bed.c:Core:test_beds: Passed ok 152 - ../tests/check_sider_bed.c:Core:test_beds: Passed ok 153 - ../tests/check_sider_bed.c:Core:test_beds: Passed ok 154 - ../tests/check_sider_bed.c:Core:test_beds: Passed ok 155 - ../tests/check_sider_bed.c:Core:test_beds: Passed ok 156 - ../tests/check_sider_bed.c:Core:test_beds: Passed ok 157 - ../tests/check_sider_bed.c:Core:test_beds: Passed ok 158 - ../tests/check_sider_bed.c:Core:test_beds: Passed ok 159 - ../tests/check_sider_bed.c:Core:test_beds: Passed ok 160 - ../tests/check_sider_bed.c:Abort:test_open_fatal: Passed ok 161 - ../tests/check_sider_bed.c:Abort:test_chrom_fatal: Passed ok 162 - ../tests/check_sider_bed.c:Abort:test_chrom_start_fatal: Passed ok 163 - ../tests/check_sider_bed.c:Abort:test_chrom_end_fatal: Passed ok 164 - ../tests/check_sider_bed.c:Abort:test_close_fatal: Passed Blacklist ok 165 - ../tests/check_sider_blacklist.c:Core:test_blacklist_index_dump_from_gff: Passed ok 166 - ../tests/check_sider_blacklist.c:Core:test_blacklist_index_dump_from_bed: Passed ok 167 - ../tests/check_sider_blacklist.c:Core:test_blacklist_lookup: Passed Retrocopy ok 168 - ../tests/check_sider_retrocopy.c:Core:test_retrocopy: Passed Dedup ok 169 - ../tests/check_sider_dedup.c:Core:test_dedup: Passed Genotype [E::idx_find_and_load] Could not retrieve index file for '/tmp/ponga_unsorted.bam.ogkRwy' ok 170 - ../tests/check_sider_genotype.c:Core:test_genotype: Passed FASTA ok 171 - ../tests/check_sider_fasta.c:Core:test_fasta_read: Passed ok 172 - ../tests/check_sider_fasta.c:Core:test_empty_file: Passed ok 173 - ../tests/check_sider_fasta.c:Abort:test_open_fatal: Passed ok 174 - ../tests/check_sider_fasta.c:Abort:test_contig_fatal: Passed ok 175 - ../tests/check_sider_fasta.c:Abort:test_seq1_fatal: Passed ok 176 - ../tests/check_sider_fasta.c:Abort:test_seq2_fatal: Passed ok 177 - ../tests/check_sider_fasta.c:Abort:test_close_fatal: Passed VCF ok 178 - ../tests/check_sider_vcf.c:Core:test_vcf: Passed GZ ok 179 - ../tests/check_sider_gz.c:Core:test_read1: Passed ok 180 - ../tests/check_sider_gz.c:Core:test_read2: Passed ok 181 - ../tests/check_sider_gz.c:Core:test_read_long_line: Passed ok 182 - ../tests/check_sider_gz.c:Abort:test_open_fatal: Passed ok 183 - ../tests/check_sider_gz.c:Abort:test_close_fatal: Passed ok 184 - ../tests/check_sider_gz.c:Abort:test_read_fatal1: Passed ok 185 - ../tests/check_sider_gz.c:Abort:test_read_fatal2: Passed 100%: Checks: 185, Failures: 0, Errors: 0 1..185 ―――――――――――――――――――――――――――――――――――――――――――――――――――――――――――――――――――――――――――――― 1/1 all OK 0.49s Ok: 1 Fail: 0 Full log written to /build/reproducible-path/sideretro-1.1.6/obj-aarch64-linux-gnu/meson-logs/testlog.txt create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install --destdir=debian/sideretro/ cd obj-aarch64-linux-gnu && DESTDIR=/build/reproducible-path/sideretro-1.1.6/debian/sideretro LC_ALL=C.UTF-8 ninja install [1/68] Generating config.h with a custom command [1/2] Installing files Installing src/sider to /build/reproducible-path/sideretro-1.1.6/debian/sideretro/usr/bin Installing docs/sider.1 to /build/reproducible-path/sideretro-1.1.6/debian/sideretro/usr/share/man/man1 dh_installdocs dh_installchangelogs dh_installman dh_perl dh_link dh_strip_nondeterminism dh_compress dh_fixperms dh_missing dh_dwz -a dh_strip -a dh_makeshlibs -a dh_shlibdeps -a 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 dh_gencontrol dh_md5sums dh_builddeb dpkg-deb: building package 'sideretro' in '../sideretro_1.1.6-2_arm64.deb'. dpkg-deb: building package 'sideretro-dbgsym' in '../sideretro-dbgsym_1.1.6-2_arm64.deb'. dpkg-genbuildinfo --build=binary -O../sideretro_1.1.6-2_arm64.buildinfo dpkg-genchanges --build=binary -O../sideretro_1.1.6-2_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: not including original 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/889074 and its subdirectories I: Current time: Tue Oct 20 08:49:39 -12 2026 I: pbuilder-time-stamp: 1792529379 Tue Oct 20 20:49:39 UTC 2026 I: Signing ./b1/sideretro_1.1.6-2_arm64.buildinfo as sideretro_1.1.6-2_arm64.buildinfo.asc Tue Oct 20 20:49:39 UTC 2026 I: Signed ./b1/sideretro_1.1.6-2_arm64.buildinfo as ./b1/sideretro_1.1.6-2_arm64.buildinfo.asc Tue Oct 20 20:49:39 UTC 2026 - build #1 for sideretro/forky/arm64 on codethink03-arm64 done. Starting cleanup. All cleanup done. Tue Oct 20 20:49:39 UTC 2026 - reproducible_build.sh stopped running as /tmp/jenkins-script-JT3t35Em, removing. /srv/reproducible-results/rbuild-debian/r-b-build.g8Ofgp54: total 16 drwxrwxr-x 2 jenkins jenkins 4096 Sep 17 14:26 b1 drwxrwxr-x 2 jenkins jenkins 4096 Sep 17 14:25 b2 -rw------- 1 jenkins jenkins 3174 Sep 17 14:25 rbuildlog.5iR7yPO -rw-rw-r-- 1 jenkins jenkins 2057 Mar 17 2025 sideretro_1.1.6-2.dsc /srv/reproducible-results/rbuild-debian/r-b-build.g8Ofgp54/b1: total 432 -rw-r--r-- 1 jenkins jenkins 123054 Sep 17 14:26 build.log -rw-r--r-- 1 jenkins jenkins 168844 Sep 17 14:26 sideretro-dbgsym_1.1.6-2_arm64.deb -rw-r--r-- 1 jenkins jenkins 7404 Sep 17 14:26 sideretro_1.1.6-2.debian.tar.xz -rw-r--r-- 1 jenkins jenkins 2057 Sep 17 14:26 sideretro_1.1.6-2.dsc -rw-r--r-- 1 jenkins jenkins 9027 Sep 17 14:26 sideretro_1.1.6-2_arm64.buildinfo -rw-rw-r-- 1 jenkins jenkins 9909 Sep 17 14:26 sideretro_1.1.6-2_arm64.buildinfo.asc -rw-r--r-- 1 jenkins jenkins 1390 Sep 17 14:26 sideretro_1.1.6-2_arm64.changes -rw-r--r-- 1 jenkins jenkins 95264 Sep 17 14:26 sideretro_1.1.6-2_arm64.deb -rw-r--r-- 1 jenkins jenkins 1231 Sep 17 14:26 sideretro_1.1.6-2_source.changes /srv/reproducible-results/rbuild-debian/r-b-build.g8Ofgp54/b2: total 0 Wed Sep 17 14:26:40 UTC 2025 I: Deleting $TMPDIR on codethink03-arm64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Tue Oct 20 08:48:52 -12 2026 I: pbuilder-time-stamp: 1792529332 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 [sideretro_1.1.6-2.dsc] I: copying [./sideretro_1.1.6.orig.tar.gz] I: copying [./sideretro_1.1.6-2.debian.tar.xz] I: Extracting source dpkg-source: warning: cannot verify inline signature for ./sideretro_1.1.6-2.dsc: no acceptable signature found dpkg-source: info: extracting sideretro in sideretro-1.1.6 dpkg-source: info: unpacking sideretro_1.1.6.orig.tar.gz dpkg-source: info: unpacking sideretro_1.1.6-2.debian.tar.xz I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/889074/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='bfb530b2bf3f4db0bf06f6af5639e3c9' 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='889074' 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.g8Ofgp54/pbuilderrc_7AdG --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.g8Ofgp54/b1 --logfile b1/build.log sideretro_1.1.6-2.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 6.12.43+deb13-cloud-arm64 #1 SMP Debian 6.12.43-1 (2025-08-27) aarch64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Aug 10 2025 /bin -> usr/bin I: user script /srv/workspace/pbuilder/889074/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: check, cmake, debhelper-compat (= 13), libhts-dev, libsqlite3-dev, meson, pkgconf, python3-sphinx, 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 ... 20020 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 check; however: Package check is not installed. pbuilder-satisfydepends-dummy depends on cmake; however: Package cmake is not installed. pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on libhts-dev; however: Package libhts-dev is not installed. pbuilder-satisfydepends-dummy depends on libsqlite3-dev; however: Package libsqlite3-dev is not installed. pbuilder-satisfydepends-dummy depends on meson; however: Package meson is not installed. pbuilder-satisfydepends-dummy depends on pkgconf; however: Package pkgconf is not installed. pbuilder-satisfydepends-dummy depends on python3-sphinx; however: Package python3-sphinx 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} ca-certificates{a} check{a} cmake{a} cmake-data{a} comerr-dev{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} docutils-common{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} krb5-multidev{a} libarchive-zip-perl{a} libarchive13t64{a} libbrotli-dev{a} libbrotli1{a} libbz2-dev{a} libcom-err2{a} libcurl3t64-gnutls{a} libcurl4-gnutls-dev{a} libcurl4t64{a} libdebhelper-perl{a} libdeflate-dev{a} libdeflate0{a} libelf1t64{a} libevent-2.1-7t64{a} libexpat1{a} libffi8{a} libfile-stripnondeterminism-perl{a} libgmp-dev{a} libgmpxx4ldbl{a} libgnutls-dane0t64{a} libgnutls-openssl27t64{a} libgnutls28-dev{a} libgnutls30t64{a} libgssapi-krb5-2{a} libgssrpc4t64{a} libhts-dev{a} libhts3t64{a} libhtscodecs2{a} libidn2-0{a} libidn2-dev{a} libjs-sphinxdoc{a} libjson-perl{a} libjsoncpp26{a} libk5crypto3{a} libkadm5clnt-mit12{a} libkadm5srv-mit12{a} libkdb5-10t64{a} libkeyutils1{a} libkrb5-3{a} libkrb5-dev{a} libkrb5support0{a} libldap-dev{a} libldap2{a} liblzma-dev{a} libmagic-mgc{a} libmagic1t64{a} libnghttp2-14{a} libnghttp2-dev{a} libnghttp3-9{a} libnghttp3-dev{a} libngtcp2-16{a} libngtcp2-crypto-gnutls-dev{a} libngtcp2-crypto-gnutls8{a} libngtcp2-dev{a} libp11-kit-dev{a} libp11-kit0{a} libpipeline1{a} libpkgconf3{a} libproc2-0{a} libpsl-dev{a} libpsl5t64{a} libpython3-stdlib{a} libpython3.13-minimal{a} libpython3.13-stdlib{a} libreadline8t64{a} librhash1{a} librtmp-dev{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsqlite3-dev{a} libssh2-1-dev{a} libssh2-1t64{a} libssl-dev{a} libsubunit-dev{a} libsubunit0{a} libtasn1-6{a} libtasn1-6-dev{a} libtool{a} libuchardet0{a} libunbound8{a} libunistring5{a} libuv1t64{a} libxml2-16{a} libzstd-dev{a} m4{a} man-db{a} media-types{a} meson{a} netbase{a} nettle-dev{a} ninja-build{a} openssl{a} pkgconf{a} pkgconf-bin{a} po-debconf{a} procps{a} python-babel-localedata{a} python3{a} python3-alabaster{a} python3-autocommand{a} python3-babel{a} python3-certifi{a} python3-chardet{a} python3-charset-normalizer{a} python3-defusedxml{a} python3-docutils{a} python3-idna{a} python3-imagesize{a} python3-inflect{a} python3-jaraco.context{a} python3-jaraco.functools{a} python3-jaraco.text{a} python3-jinja2{a} python3-markupsafe{a} python3-minimal{a} python3-more-itertools{a} python3-packaging{a} python3-pkg-resources{a} python3-pygments{a} python3-requests{a} python3-roman{a} python3-roman-numerals{a} python3-setuptools{a} python3-snowballstemmer{a} python3-sphinx{a} python3-typeguard{a} python3-typing-extensions{a} python3-urllib3{a} python3-zipp{a} python3.13{a} python3.13-minimal{a} readline-common{a} sensible-utils{a} sgml-base{a} sphinx-common{a} tzdata{a} xml-core{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: bzip2-doc curl krb5-locales libarchive-cpio-perl libjson-xs-perl libldap-common libltdl-dev libmail-sendmail-perl libpaper-utils libsasl2-modules libtasn1-doc linux-sysctl-defaults lynx psmisc publicsuffix python3-pil wget 0 packages upgraded, 160 newly installed, 0 to remove and 0 not upgraded. Need to get 65.6 MB of archives. After unpacking 266 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian forky/main arm64 libexpat1 arm64 2.7.1-2 [93.3 kB] Get: 2 http://deb.debian.org/debian forky/main arm64 libpython3.13-minimal arm64 3.13.7-1 [857 kB] Get: 3 http://deb.debian.org/debian forky/main arm64 python3.13-minimal arm64 3.13.7-1 [2001 kB] Get: 4 http://deb.debian.org/debian forky/main arm64 python3-minimal arm64 3.13.7-1 [27.2 kB] Get: 5 http://deb.debian.org/debian forky/main arm64 media-types all 13.0.0 [29.3 kB] Get: 6 http://deb.debian.org/debian forky/main arm64 netbase all 6.5 [12.4 kB] Get: 7 http://deb.debian.org/debian forky/main arm64 tzdata all 2025b-5 [260 kB] Get: 8 http://deb.debian.org/debian forky/main arm64 libffi8 arm64 3.5.2-2 [21.5 kB] Get: 9 http://deb.debian.org/debian forky/main arm64 readline-common all 8.3-3 [74.8 kB] Get: 10 http://deb.debian.org/debian forky/main arm64 libreadline8t64 arm64 8.3-3 [169 kB] Get: 11 http://deb.debian.org/debian forky/main arm64 libpython3.13-stdlib arm64 3.13.7-1 [1895 kB] Get: 12 http://deb.debian.org/debian forky/main arm64 python3.13 arm64 3.13.7-1 [761 kB] Get: 13 http://deb.debian.org/debian forky/main arm64 libpython3-stdlib arm64 3.13.7-1 [10.2 kB] Get: 14 http://deb.debian.org/debian forky/main arm64 python3 arm64 3.13.7-1 [28.3 kB] Get: 15 http://deb.debian.org/debian forky/main arm64 libproc2-0 arm64 2:4.0.4-9 [62.8 kB] Get: 16 http://deb.debian.org/debian forky/main arm64 procps arm64 2:4.0.4-9 [871 kB] Get: 17 http://deb.debian.org/debian forky/main arm64 sensible-utils all 0.0.26 [27.0 kB] Get: 18 http://deb.debian.org/debian forky/main arm64 openssl arm64 3.5.2-1 [1457 kB] Get: 19 http://deb.debian.org/debian forky/main arm64 ca-certificates all 20250419 [162 kB] Get: 20 http://deb.debian.org/debian forky/main arm64 libmagic-mgc arm64 1:5.46-5 [338 kB] Get: 21 http://deb.debian.org/debian forky/main arm64 libmagic1t64 arm64 1:5.46-5 [103 kB] Get: 22 http://deb.debian.org/debian forky/main arm64 file arm64 1:5.46-5 [43.7 kB] Get: 23 http://deb.debian.org/debian forky/main arm64 gettext-base arm64 0.23.1-2+b1 [241 kB] Get: 24 http://deb.debian.org/debian forky/main arm64 libuchardet0 arm64 0.0.8-2 [69.0 kB] Get: 25 http://deb.debian.org/debian forky/main arm64 groff-base arm64 1.23.0-9 [1130 kB] Get: 26 http://deb.debian.org/debian forky/main arm64 bsdextrautils arm64 2.41.1-3 [98.1 kB] Get: 27 http://deb.debian.org/debian forky/main arm64 libpipeline1 arm64 1.5.8-1 [40.2 kB] Get: 28 http://deb.debian.org/debian forky/main arm64 man-db arm64 2.13.1-1 [1453 kB] Get: 29 http://deb.debian.org/debian forky/main arm64 m4 arm64 1.4.20-1 [316 kB] Get: 30 http://deb.debian.org/debian forky/main arm64 autoconf all 2.72-3.1 [494 kB] Get: 31 http://deb.debian.org/debian forky/main arm64 autotools-dev all 20240727.1 [60.2 kB] Get: 32 http://deb.debian.org/debian forky/main arm64 automake all 1:1.17-4 [862 kB] Get: 33 http://deb.debian.org/debian forky/main arm64 autopoint all 0.23.1-2 [770 kB] Get: 34 http://deb.debian.org/debian forky/main arm64 libsubunit0 arm64 1.4.2-3+b1 [6520 B] Get: 35 http://deb.debian.org/debian forky/main arm64 libsubunit-dev arm64 1.4.2-3+b1 [7416 B] Get: 36 http://deb.debian.org/debian forky/main arm64 check arm64 0.15.2-3 [112 kB] Get: 37 http://deb.debian.org/debian forky/main arm64 cmake-data all 4.1.1+really3.31.6-1 [2268 kB] Get: 38 http://deb.debian.org/debian forky/main arm64 libxml2-16 arm64 2.14.5+dfsg-0.2 [582 kB] Get: 39 http://deb.debian.org/debian forky/main arm64 libarchive13t64 arm64 3.7.4-4+b1 [323 kB] Get: 40 http://deb.debian.org/debian forky/main arm64 libbrotli1 arm64 1.1.0-2+b7 [308 kB] Get: 41 http://deb.debian.org/debian forky/main arm64 libkrb5support0 arm64 1.21.3-5 [32.4 kB] Get: 42 http://deb.debian.org/debian forky/main arm64 libcom-err2 arm64 1.47.2-3+b3 [24.9 kB] Get: 43 http://deb.debian.org/debian forky/main arm64 libk5crypto3 arm64 1.21.3-5 [81.2 kB] Get: 44 http://deb.debian.org/debian forky/main arm64 libkeyutils1 arm64 1.6.3-6 [9716 B] Get: 45 http://deb.debian.org/debian forky/main arm64 libkrb5-3 arm64 1.21.3-5 [308 kB] Get: 46 http://deb.debian.org/debian forky/main arm64 libgssapi-krb5-2 arm64 1.21.3-5 [127 kB] Get: 47 http://deb.debian.org/debian forky/main arm64 libunistring5 arm64 1.3-2 [453 kB] Get: 48 http://deb.debian.org/debian forky/main arm64 libidn2-0 arm64 2.3.8-4 [108 kB] Get: 49 http://deb.debian.org/debian forky/main arm64 libsasl2-modules-db arm64 2.1.28+dfsg1-9 [20.1 kB] Get: 50 http://deb.debian.org/debian forky/main arm64 libsasl2-2 arm64 2.1.28+dfsg1-9 [55.6 kB] Get: 51 http://deb.debian.org/debian forky/main arm64 libldap2 arm64 2.6.10+dfsg-1 [179 kB] Get: 52 http://deb.debian.org/debian forky/main arm64 libnghttp2-14 arm64 1.64.0-1.1+b1 [71.7 kB] Get: 53 http://deb.debian.org/debian forky/main arm64 libnghttp3-9 arm64 1.11.0-1 [66.7 kB] Get: 54 http://deb.debian.org/debian forky/main arm64 libpsl5t64 arm64 0.21.2-1.1+b1 [57.1 kB] Get: 55 http://deb.debian.org/debian forky/main arm64 libp11-kit0 arm64 0.25.5-3 [409 kB] Get: 56 http://deb.debian.org/debian forky/main arm64 libtasn1-6 arm64 4.20.0-2 [47.3 kB] Get: 57 http://deb.debian.org/debian forky/main arm64 libgnutls30t64 arm64 3.8.9-3 [1375 kB] Get: 58 http://deb.debian.org/debian forky/main arm64 librtmp1 arm64 2.4+20151223.gitfa8646d.1-3 [56.3 kB] Get: 59 http://deb.debian.org/debian forky/main arm64 libssh2-1t64 arm64 1.11.1-1 [235 kB] Get: 60 http://deb.debian.org/debian forky/main arm64 libcurl4t64 arm64 8.15.0-1 [360 kB] Get: 61 http://deb.debian.org/debian forky/main arm64 libjsoncpp26 arm64 1.9.6-4 [73.2 kB] Get: 62 http://deb.debian.org/debian forky/main arm64 librhash1 arm64 1.4.6-1 [131 kB] Get: 63 http://deb.debian.org/debian forky/main arm64 libuv1t64 arm64 1.51.0-2 [150 kB] Get: 64 http://deb.debian.org/debian forky/main arm64 cmake arm64 4.1.1+really3.31.6-1 [9905 kB] Get: 65 http://deb.debian.org/debian forky/main arm64 comerr-dev arm64 2.1-1.47.2-3+b3 [56.9 kB] Get: 66 http://deb.debian.org/debian forky/main arm64 libdebhelper-perl all 13.26 [91.8 kB] Get: 67 http://deb.debian.org/debian forky/main arm64 libtool all 2.5.4-5 [540 kB] Get: 68 http://deb.debian.org/debian forky/main arm64 dh-autoreconf all 20 [17.1 kB] Get: 69 http://deb.debian.org/debian forky/main arm64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 70 http://deb.debian.org/debian forky/main arm64 libfile-stripnondeterminism-perl all 1.15.0-1 [19.9 kB] Get: 71 http://deb.debian.org/debian forky/main arm64 dh-strip-nondeterminism all 1.15.0-1 [8812 B] Get: 72 http://deb.debian.org/debian forky/main arm64 libelf1t64 arm64 0.193-3 [189 kB] Get: 73 http://deb.debian.org/debian forky/main arm64 dwz arm64 0.16-2 [100 kB] Get: 74 http://deb.debian.org/debian forky/main arm64 gettext arm64 0.23.1-2+b1 [1612 kB] Get: 75 http://deb.debian.org/debian forky/main arm64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 76 http://deb.debian.org/debian forky/main arm64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 77 http://deb.debian.org/debian forky/main arm64 debhelper all 13.26 [939 kB] Get: 78 http://deb.debian.org/debian forky/main arm64 sgml-base all 1.31+nmu1 [10.9 kB] Get: 79 http://deb.debian.org/debian forky/main arm64 xml-core all 0.19 [20.1 kB] Get: 80 http://deb.debian.org/debian forky/main arm64 docutils-common all 0.21.2+dfsg-2 [128 kB] Get: 81 http://deb.debian.org/debian forky/main arm64 libgssrpc4t64 arm64 1.21.3-5 [57.2 kB] Get: 82 http://deb.debian.org/debian forky/main arm64 libkadm5clnt-mit12 arm64 1.21.3-5 [41.1 kB] Get: 83 http://deb.debian.org/debian forky/main arm64 libkdb5-10t64 arm64 1.21.3-5 [41.3 kB] Get: 84 http://deb.debian.org/debian forky/main arm64 libkadm5srv-mit12 arm64 1.21.3-5 [53.0 kB] Get: 85 http://deb.debian.org/debian forky/main arm64 krb5-multidev arm64 1.21.3-5 [126 kB] Get: 86 http://deb.debian.org/debian forky/main arm64 libbrotli-dev arm64 1.1.0-2+b7 [308 kB] Get: 87 http://deb.debian.org/debian forky/main arm64 libbz2-dev arm64 1.0.8-6 [31.9 kB] Get: 88 http://deb.debian.org/debian forky/main arm64 libngtcp2-16 arm64 1.15.1-1 [122 kB] Get: 89 http://deb.debian.org/debian forky/main arm64 libngtcp2-crypto-gnutls8 arm64 1.15.1-1 [18.6 kB] Get: 90 http://deb.debian.org/debian forky/main arm64 libcurl3t64-gnutls arm64 8.15.0-1 [355 kB] Get: 91 http://deb.debian.org/debian forky/main arm64 libevent-2.1-7t64 arm64 2.1.12-stable-10+b1 [170 kB] Get: 92 http://deb.debian.org/debian forky/main arm64 libunbound8 arm64 1.23.1-1 [561 kB] Get: 93 http://deb.debian.org/debian forky/main arm64 libgnutls-dane0t64 arm64 3.8.9-3 [453 kB] Get: 94 http://deb.debian.org/debian forky/main arm64 libgnutls-openssl27t64 arm64 3.8.9-3 [453 kB] Get: 95 http://deb.debian.org/debian forky/main arm64 libidn2-dev arm64 2.3.8-4 [102 kB] Get: 96 http://deb.debian.org/debian forky/main arm64 libp11-kit-dev arm64 0.25.5-3 [208 kB] Get: 97 http://deb.debian.org/debian forky/main arm64 libtasn1-6-dev arm64 4.20.0-2 [96.7 kB] Get: 98 http://deb.debian.org/debian forky/main arm64 libgmpxx4ldbl arm64 2:6.3.0+dfsg-5 [329 kB] Get: 99 http://deb.debian.org/debian forky/main arm64 libgmp-dev arm64 2:6.3.0+dfsg-5 [621 kB] Get: 100 http://deb.debian.org/debian forky/main arm64 nettle-dev arm64 3.10.1-1 [1325 kB] Get: 101 http://deb.debian.org/debian forky/main arm64 libgnutls28-dev arm64 3.8.9-3 [1416 kB] Get: 102 http://deb.debian.org/debian forky/main arm64 libkrb5-dev arm64 1.21.3-5 [16.1 kB] Get: 103 http://deb.debian.org/debian forky/main arm64 libldap-dev arm64 2.6.10+dfsg-1 [305 kB] Get: 104 http://deb.debian.org/debian forky/main arm64 libpkgconf3 arm64 1.8.1-4 [35.3 kB] Get: 105 http://deb.debian.org/debian forky/main arm64 pkgconf-bin arm64 1.8.1-4 [29.6 kB] Get: 106 http://deb.debian.org/debian forky/main arm64 pkgconf arm64 1.8.1-4 [26.1 kB] Get: 107 http://deb.debian.org/debian forky/main arm64 libnghttp2-dev arm64 1.64.0-1.1+b1 [112 kB] Get: 108 http://deb.debian.org/debian forky/main arm64 libnghttp3-dev arm64 1.11.0-1 [94.6 kB] Get: 109 http://deb.debian.org/debian forky/main arm64 libngtcp2-crypto-gnutls-dev arm64 1.15.1-1 [24.5 kB] Get: 110 http://deb.debian.org/debian forky/main arm64 libngtcp2-dev arm64 1.15.1-1 [179 kB] Get: 111 http://deb.debian.org/debian forky/main arm64 libpsl-dev arm64 0.21.2-1.1+b1 [77.9 kB] Get: 112 http://deb.debian.org/debian forky/main arm64 zlib1g-dev arm64 1:1.3.dfsg+really1.3.1-1+b1 [917 kB] Get: 113 http://deb.debian.org/debian forky/main arm64 librtmp-dev arm64 2.4+20151223.gitfa8646d.1-3 [173 kB] Get: 114 http://deb.debian.org/debian forky/main arm64 libssl-dev arm64 3.5.2-1 [3386 kB] Get: 115 http://deb.debian.org/debian forky/main arm64 libssh2-1-dev arm64 1.11.1-1 [388 kB] Get: 116 http://deb.debian.org/debian forky/main arm64 libzstd-dev arm64 1.5.7+dfsg-1.1 [335 kB] Get: 117 http://deb.debian.org/debian forky/main arm64 libcurl4-gnutls-dev arm64 8.15.0-1 [490 kB] Get: 118 http://deb.debian.org/debian forky/main arm64 libdeflate0 arm64 1.23-2 [42.4 kB] Get: 119 http://deb.debian.org/debian forky/main arm64 libdeflate-dev arm64 1.23-2 [51.3 kB] Get: 120 http://deb.debian.org/debian forky/main arm64 libhtscodecs2 arm64 1.6.1-2 [74.7 kB] Get: 121 http://deb.debian.org/debian forky/main arm64 libhts3t64 arm64 1.22.1+ds2-1 [434 kB] Get: 122 http://deb.debian.org/debian forky/main arm64 liblzma-dev arm64 5.8.1-1.1 [344 kB] Get: 123 http://deb.debian.org/debian forky/main arm64 libhts-dev arm64 1.22.1+ds2-1 [1684 kB] Get: 124 http://deb.debian.org/debian forky/main arm64 libjs-sphinxdoc all 8.2.3-6 [27.5 kB] Get: 125 http://deb.debian.org/debian forky/main arm64 libjson-perl all 4.10000-1 [87.5 kB] Get: 126 http://deb.debian.org/debian forky/main arm64 libsqlite3-dev arm64 3.46.1-8 [1098 kB] Get: 127 http://deb.debian.org/debian forky/main arm64 ninja-build arm64 1.12.1-1+b1 [130 kB] Get: 128 http://deb.debian.org/debian forky/main arm64 python3-autocommand all 2.2.2-3 [13.6 kB] Get: 129 http://deb.debian.org/debian forky/main arm64 python3-more-itertools all 10.8.0-1 [71.7 kB] Get: 130 http://deb.debian.org/debian forky/main arm64 python3-typing-extensions all 4.15.0-1 [92.4 kB] Get: 131 http://deb.debian.org/debian forky/main arm64 python3-typeguard all 4.4.4-1 [37.1 kB] Get: 132 http://deb.debian.org/debian forky/main arm64 python3-inflect all 7.5.0-1 [33.0 kB] Get: 133 http://deb.debian.org/debian forky/main arm64 python3-jaraco.context all 6.0.1-1 [8276 B] Get: 134 http://deb.debian.org/debian forky/main arm64 python3-jaraco.functools all 4.1.0-1 [12.0 kB] Get: 135 http://deb.debian.org/debian forky/main arm64 python3-pkg-resources all 78.1.1-0.1 [224 kB] Get: 136 http://deb.debian.org/debian forky/main arm64 python3-jaraco.text all 4.0.0-1 [11.4 kB] Get: 137 http://deb.debian.org/debian forky/main arm64 python3-zipp all 3.23.0-1 [11.0 kB] Get: 138 http://deb.debian.org/debian forky/main arm64 python3-setuptools all 78.1.1-0.1 [738 kB] Get: 139 http://deb.debian.org/debian forky/main arm64 meson all 1.9.0-1 [664 kB] Get: 140 http://deb.debian.org/debian forky/main arm64 python-babel-localedata all 2.17.0-1 [6050 kB] Get: 141 http://deb.debian.org/debian forky/main arm64 python3-alabaster all 0.7.16-0.1 [27.9 kB] Get: 142 http://deb.debian.org/debian forky/main arm64 python3-babel all 2.17.0-1 [117 kB] Get: 143 http://deb.debian.org/debian forky/main arm64 python3-certifi all 2025.1.31+ds-1 [9652 B] Get: 144 http://deb.debian.org/debian forky/main arm64 python3-chardet all 5.2.0+dfsg-2 [108 kB] Get: 145 http://deb.debian.org/debian forky/main arm64 python3-charset-normalizer arm64 3.4.3-1 [123 kB] Get: 146 http://deb.debian.org/debian forky/main arm64 python3-defusedxml all 0.7.1-3 [43.4 kB] Get: 147 http://deb.debian.org/debian forky/main arm64 python3-roman all 5.1-1 [11.0 kB] Get: 148 http://deb.debian.org/debian forky/main arm64 python3-docutils all 0.21.2+dfsg-2 [403 kB] Get: 149 http://deb.debian.org/debian forky/main arm64 python3-idna all 3.10-1 [42.0 kB] Get: 150 http://deb.debian.org/debian forky/main arm64 python3-imagesize all 1.4.1-1 [6688 B] Get: 151 http://deb.debian.org/debian forky/main arm64 python3-markupsafe arm64 2.1.5-1+b4 [14.1 kB] Get: 152 http://deb.debian.org/debian forky/main arm64 python3-jinja2 all 3.1.6-1 [107 kB] Get: 153 http://deb.debian.org/debian forky/main arm64 python3-packaging all 25.0-1 [56.6 kB] Get: 154 http://deb.debian.org/debian forky/main arm64 python3-pygments all 2.18.0+dfsg-2 [836 kB] Get: 155 http://deb.debian.org/debian forky/main arm64 python3-urllib3 all 2.5.0-1 [116 kB] Get: 156 http://deb.debian.org/debian forky/main arm64 python3-requests all 2.32.5+dfsg-1 [72.4 kB] Get: 157 http://deb.debian.org/debian forky/main arm64 python3-roman-numerals all 3.1.0-2 [8740 B] Get: 158 http://deb.debian.org/debian forky/main arm64 python3-snowballstemmer all 3.0.1-1 [63.5 kB] Get: 159 http://deb.debian.org/debian forky/main arm64 sphinx-common all 8.2.3-6 [619 kB] Get: 160 http://deb.debian.org/debian forky/main arm64 python3-sphinx all 8.2.3-6 [477 kB] Fetched 65.6 MB in 0s (262 MB/s) Preconfiguring packages ... Selecting previously unselected package libexpat1:arm64. (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 ... 20020 files and directories currently installed.) Preparing to unpack .../libexpat1_2.7.1-2_arm64.deb ... Unpacking libexpat1:arm64 (2.7.1-2) ... Selecting previously unselected package libpython3.13-minimal:arm64. Preparing to unpack .../libpython3.13-minimal_3.13.7-1_arm64.deb ... Unpacking libpython3.13-minimal:arm64 (3.13.7-1) ... Selecting previously unselected package python3.13-minimal. Preparing to unpack .../python3.13-minimal_3.13.7-1_arm64.deb ... Unpacking python3.13-minimal (3.13.7-1) ... Setting up libpython3.13-minimal:arm64 (3.13.7-1) ... Setting up libexpat1:arm64 (2.7.1-2) ... Setting up python3.13-minimal (3.13.7-1) ... Selecting previously unselected package python3-minimal. (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 ... 20354 files and directories currently installed.) Preparing to unpack .../0-python3-minimal_3.13.7-1_arm64.deb ... Unpacking python3-minimal (3.13.7-1) ... Selecting previously unselected package media-types. Preparing to unpack .../1-media-types_13.0.0_all.deb ... Unpacking media-types (13.0.0) ... Selecting previously unselected package netbase. Preparing to unpack .../2-netbase_6.5_all.deb ... Unpacking netbase (6.5) ... Selecting previously unselected package tzdata. Preparing to unpack .../3-tzdata_2025b-5_all.deb ... Unpacking tzdata (2025b-5) ... Selecting previously unselected package libffi8:arm64. Preparing to unpack .../4-libffi8_3.5.2-2_arm64.deb ... Unpacking libffi8:arm64 (3.5.2-2) ... Selecting previously unselected package readline-common. Preparing to unpack .../5-readline-common_8.3-3_all.deb ... Unpacking readline-common (8.3-3) ... Selecting previously unselected package libreadline8t64:arm64. Preparing to unpack .../6-libreadline8t64_8.3-3_arm64.deb ... Adding 'diversion of /lib/aarch64-linux-gnu/libhistory.so.8 to /lib/aarch64-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/aarch64-linux-gnu/libhistory.so.8.2 to /lib/aarch64-linux-gnu/libhistory.so.8.2.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/aarch64-linux-gnu/libreadline.so.8 to /lib/aarch64-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/aarch64-linux-gnu/libreadline.so.8.2 to /lib/aarch64-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64' Unpacking libreadline8t64:arm64 (8.3-3) ... Selecting previously unselected package libpython3.13-stdlib:arm64. Preparing to unpack .../7-libpython3.13-stdlib_3.13.7-1_arm64.deb ... Unpacking libpython3.13-stdlib:arm64 (3.13.7-1) ... Selecting previously unselected package python3.13. Preparing to unpack .../8-python3.13_3.13.7-1_arm64.deb ... Unpacking python3.13 (3.13.7-1) ... 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Selecting previously unselected package libsubunit0:arm64. Preparing to unpack .../020-libsubunit0_1.4.2-3+b1_arm64.deb ... Unpacking libsubunit0:arm64 (1.4.2-3+b1) ... Selecting previously unselected package libsubunit-dev:arm64. Preparing to unpack .../021-libsubunit-dev_1.4.2-3+b1_arm64.deb ... Unpacking libsubunit-dev:arm64 (1.4.2-3+b1) ... Selecting previously unselected package check:arm64. Preparing to unpack .../022-check_0.15.2-3_arm64.deb ... Unpacking check:arm64 (0.15.2-3) ... Selecting previously unselected package cmake-data. Preparing to unpack .../023-cmake-data_4.1.1+really3.31.6-1_all.deb ... Unpacking cmake-data (4.1.1+really3.31.6-1) ... Selecting previously unselected package libxml2-16:arm64. Preparing to unpack .../024-libxml2-16_2.14.5+dfsg-0.2_arm64.deb ... Unpacking libxml2-16:arm64 (2.14.5+dfsg-0.2) ... Selecting previously unselected package libarchive13t64:arm64. Preparing to unpack .../025-libarchive13t64_3.7.4-4+b1_arm64.deb ... Unpacking libarchive13t64:arm64 (3.7.4-4+b1) ... Selecting previously unselected package libbrotli1:arm64. Preparing to unpack .../026-libbrotli1_1.1.0-2+b7_arm64.deb ... Unpacking libbrotli1:arm64 (1.1.0-2+b7) ... Selecting previously unselected package libkrb5support0:arm64. Preparing to unpack .../027-libkrb5support0_1.21.3-5_arm64.deb ... Unpacking libkrb5support0:arm64 (1.21.3-5) ... Selecting previously unselected package libcom-err2:arm64. Preparing to unpack .../028-libcom-err2_1.47.2-3+b3_arm64.deb ... Unpacking libcom-err2:arm64 (1.47.2-3+b3) ... Selecting previously unselected package libk5crypto3:arm64. Preparing to unpack .../029-libk5crypto3_1.21.3-5_arm64.deb ... Unpacking libk5crypto3:arm64 (1.21.3-5) ... Selecting previously unselected package libkeyutils1:arm64. Preparing to unpack .../030-libkeyutils1_1.6.3-6_arm64.deb ... Unpacking libkeyutils1:arm64 (1.6.3-6) ... Selecting previously unselected package libkrb5-3:arm64. 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Running hooks in /etc/ca-certificates/update.d... done. 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/sideretro-1.1.6/ && 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 > ../sideretro_1.1.6-2_source.changes dpkg-buildpackage: info: source package sideretro dpkg-buildpackage: info: source version 1.1.6-2 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Daniela Moreira Mombach dpkg-source --before-build . dpkg-buildpackage: info: host architecture arm64 debian/rules clean dh clean dh_clean debian/rules binary dh binary dh_update_autotools_config dh_autoreconf dh_auto_configure cd obj-aarch64-linux-gnu && DEB_PYTHON_INSTALL_LAYOUT=deb LC_ALL=C.UTF-8 meson setup .. --wrap-mode=nodownload --buildtype=plain --prefix=/usr --sysconfdir=/etc --localstatedir=/var --libdir=lib/aarch64-linux-gnu -Dpython.bytecompile=-1 The Meson build system Version: 1.9.0 Source dir: /build/reproducible-path/sideretro-1.1.6 Build dir: /build/reproducible-path/sideretro-1.1.6/obj-aarch64-linux-gnu Build type: native build Project name: sideRETRO Project version: 1.1.6 C compiler for the host machine: cc (gcc 15.2.0 "cc (Debian 15.2.0-3) 15.2.0") C linker for the host machine: cc ld.bfd 2.45 Host machine cpu family: aarch64 Host machine cpu: aarch64 Configuring config.h.in using configuration Library m found: YES Library dl found: YES Run-time dependency threads found: YES Found pkg-config: YES (/usr/bin/pkg-config) 1.8.1 Run-time dependency zlib found: YES 1.3.1 Run-time dependency sqlite3 found: YES 3.46.1 Run-time dependency htslib found: YES 1.22.1 Run-time dependency check found: YES 0.15.2 Program sphinx-build found: YES (/usr/bin/sphinx-build) Message: Generate man page alongside the executable Build targets in project: 5 sideRETRO 1.1.6 User defined options buildtype : plain libdir : lib/aarch64-linux-gnu localstatedir : /var prefix : /usr python.bytecompile: -1 sysconfdir : /etc wrap_mode : nodownload Found ninja-1.12.1 at /usr/bin/ninja dh_auto_build cd obj-aarch64-linux-gnu && LC_ALL=C.UTF-8 ninja -j12 -v [1/70] /usr/bin/meson --internal vcstagger config.h.in config.h 1.1.6 /build/reproducible-path/sideretro-1.1.6 @version@ '(.*)' git describe --tags --dirty=+ [2/70] cc -Isrc/libsider.a.p -Isrc -I../src -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -MD -MQ src/libsider.a.p/chr.c.o -MF src/libsider.a.p/chr.c.o.d -o src/libsider.a.p/chr.c.o -c ../src/chr.c [3/70] cc 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-I../src -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -MD -MQ src/libsider.a.p/wrapper.c.o -MF src/libsider.a.p/wrapper.c.o.d -o src/libsider.a.p/wrapper.c.o -c ../src/wrapper.c [33/70] cc -Isrc/libsider.a.p -Isrc -I../src -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -MD -MQ src/libsider.a.p/thpool.c.o -MF 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tests/check_sider.p/check_sider_blacklist.c.o -MF tests/check_sider.p/check_sider_blacklist.c.o.d -o tests/check_sider.p/check_sider_blacklist.c.o -c ../tests/check_sider_blacklist.c [41/70] rm -f src/libsider.a && gcc-ar csrDT src/libsider.a src/libsider.a.p/abnormal.c.o src/libsider.a.p/array.c.o src/libsider.a.p/bed.c.o src/libsider.a.p/bitree.c.o src/libsider.a.p/blacklist.c.o src/libsider.a.p/chr.c.o src/libsider.a.p/cluster.c.o src/libsider.a.p/correlation.c.o src/libsider.a.p/db.c.o src/libsider.a.p/db_merge.c.o src/libsider.a.p/dbscan.c.o src/libsider.a.p/dedup.c.o src/libsider.a.p/exon.c.o src/libsider.a.p/fasta.c.o src/libsider.a.p/genotype.c.o src/libsider.a.p/gff.c.o src/libsider.a.p/gz.c.o src/libsider.a.p/hash.c.o src/libsider.a.p/ibitree.c.o src/libsider.a.p/io.c.o src/libsider.a.p/list.c.o src/libsider.a.p/log.c.o src/libsider.a.p/logger.c.o src/libsider.a.p/make_vcf.c.o src/libsider.a.p/merge_call.c.o src/libsider.a.p/process_sample.c.o src/libsider.a.p/retrocopy.c.o src/libsider.a.p/sam.c.o src/libsider.a.p/set.c.o src/libsider.a.p/str.c.o src/libsider.a.p/thpool.c.o src/libsider.a.p/utils.c.o src/libsider.a.p/vcf.c.o src/libsider.a.p/wrapper.c.o [42/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_correlation.c.o -MF tests/check_sider.p/check_sider_correlation.c.o.d -o tests/check_sider.p/check_sider_correlation.c.o -c ../tests/check_sider_correlation.c [43/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 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-fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_cluster.c.o -MF tests/check_sider.p/check_sider_cluster.c.o.d -o tests/check_sider.p/check_sider_cluster.c.o -c ../tests/check_sider_cluster.c [47/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_dbscan.c.o -MF tests/check_sider.p/check_sider_dbscan.c.o.d -o tests/check_sider.p/check_sider_dbscan.c.o -c ../tests/check_sider_dbscan.c [48/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_array.c.o -MF tests/check_sider.p/check_sider_array.c.o.d -o tests/check_sider.p/check_sider_array.c.o -c ../tests/check_sider_array.c [49/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_genotype.c.o -MF tests/check_sider.p/check_sider_genotype.c.o.d -o tests/check_sider.p/check_sider_genotype.c.o -c ../tests/check_sider_genotype.c [50/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_db.c.o -MF tests/check_sider.p/check_sider_db.c.o.d -o tests/check_sider.p/check_sider_db.c.o -c ../tests/check_sider_db.c [51/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration 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-Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_io.c.o -MF tests/check_sider.p/check_sider_io.c.o.d -o tests/check_sider.p/check_sider_io.c.o -c ../tests/check_sider_io.c [54/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_gz.c.o -MF tests/check_sider.p/check_sider_gz.c.o.d -o tests/check_sider.p/check_sider_gz.c.o -c ../tests/check_sider_gz.c [55/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_main.c.o -MF tests/check_sider.p/check_sider_main.c.o.d -o tests/check_sider.p/check_sider_main.c.o -c ../tests/check_sider_main.c [56/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration 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../tests/check_sider_gff.c [58/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_ibitree.c.o -MF tests/check_sider.p/check_sider_ibitree.c.o.d -o tests/check_sider.p/check_sider_ibitree.c.o -c ../tests/check_sider_ibitree.c [59/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_list.c.o -MF tests/check_sider.p/check_sider_list.c.o.d -o tests/check_sider.p/check_sider_list.c.o -c ../tests/check_sider_list.c [60/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_retrocopy.c.o -MF tests/check_sider.p/check_sider_retrocopy.c.o.d -o tests/check_sider.p/check_sider_retrocopy.c.o -c ../tests/check_sider_retrocopy.c [61/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_sam.c.o -MF tests/check_sider.p/check_sider_sam.c.o.d -o tests/check_sider.p/check_sider_sam.c.o -c ../tests/check_sider_sam.c [62/70] cc -o src/sider src/sider.p/main.c.o -Wl,--as-needed -Wl,--no-undefined -Wl,-z,relro -Wl,-z,now -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,--start-group src/libsider.a -pthread /usr/lib/aarch64-linux-gnu/libsqlite3.so /usr/lib/aarch64-linux-gnu/libhts.so /usr/lib/aarch64-linux-gnu/libz.so -lm -ldl -Wl,--end-group [63/70] /usr/bin/sphinx-build -b man /build/reproducible-path/sideretro-1.1.6/docs /build/reproducible-path/sideretro-1.1.6/obj-aarch64-linux-gnu/docs Running Sphinx v8.2.3 WARNING: Invalid configuration value found: 'language = None'. Update your configuration to a valid language code. Falling back to 'en' (English). loading translations [en]... done Converting `source_suffix = '.rst'` to `source_suffix = {'.rst': 'restructuredtext'}`. building [mo]: targets for 0 po files that are out of date writing output... building [man]: all manpages updating environment: [new config] 8 added, 0 changed, 0 removed reading sources... [ 12%] authors reading sources... [ 25%] index reading sources... [ 38%] install reading sources... [ 50%] intro reading sources... [ 62%] method reading sources... [ 75%] result reading sources... [ 88%] retrocopy reading sources... [100%] usage looking for now-outdated files... none found pickling environment... done checking consistency... /build/reproducible-path/sideretro-1.1.6/docs/index.rst: WARNING: document isn't included in any toctree [toc.not_included] done preparing documents... done copying assets... copying assets: done writing... sider.1 { } done build succeeded, 2 warnings. The manual pages are in docs. [64/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_vcf.c.o -MF tests/check_sider.p/check_sider_vcf.c.o.d -o tests/check_sider.p/check_sider_vcf.c.o -c ../tests/check_sider_vcf.c [65/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_str.c.o -MF tests/check_sider.p/check_sider_str.c.o.d -o tests/check_sider.p/check_sider_str.c.o -c ../tests/check_sider_str.c [66/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_set.c.o -MF tests/check_sider.p/check_sider_set.c.o.d -o tests/check_sider.p/check_sider_set.c.o -c ../tests/check_sider_set.c [67/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_wrapper.c.o -MF tests/check_sider.p/check_sider_wrapper.c.o.d -o tests/check_sider.p/check_sider_wrapper.c.o -c ../tests/check_sider_wrapper.c ../tests/check_sider_wrapper.c: In function ‘test_xfprintf_fn’: ../tests/check_sider_wrapper.c:281:9: warning: ignoring return value of ‘fread’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 281 | fread (buf, sizeof (char), str_size, fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../tests/check_sider_wrapper.c: In function ‘test_xfflush_fn’: ../tests/check_sider_wrapper.c:180:9: warning: ignoring return value of ‘fread’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 180 | fread (buf, sizeof (char), str_size, fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [68/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_hash.c.o -MF tests/check_sider.p/check_sider_hash.c.o.d -o tests/check_sider.p/check_sider_hash.c.o -c ../tests/check_sider_hash.c [69/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_utils.c.o -MF tests/check_sider.p/check_sider_utils.c.o.d -o tests/check_sider.p/check_sider_utils.c.o -c ../tests/check_sider_utils.c [70/70] cc -o tests/check_sider tests/check_sider.p/check_sider_abnormal.c.o tests/check_sider.p/check_sider_array.c.o tests/check_sider.p/check_sider_bed.c.o tests/check_sider.p/check_sider_bitree.c.o tests/check_sider.p/check_sider_blacklist.c.o tests/check_sider.p/check_sider_chr.c.o tests/check_sider.p/check_sider_cluster.c.o tests/check_sider.p/check_sider_correlation.c.o tests/check_sider.p/check_sider_db.c.o tests/check_sider.p/check_sider_db_merge.c.o tests/check_sider.p/check_sider_dbscan.c.o tests/check_sider.p/check_sider_dedup.c.o tests/check_sider.p/check_sider_exon.c.o tests/check_sider.p/check_sider_fasta.c.o tests/check_sider.p/check_sider_genotype.c.o tests/check_sider.p/check_sider_gff.c.o tests/check_sider.p/check_sider_gz.c.o tests/check_sider.p/check_sider_hash.c.o tests/check_sider.p/check_sider_ibitree.c.o tests/check_sider.p/check_sider_io.c.o tests/check_sider.p/check_sider_list.c.o tests/check_sider.p/check_sider_main.c.o tests/check_sider.p/check_sider_process_sample.c.o tests/check_sider.p/check_sider_retrocopy.c.o tests/check_sider.p/check_sider_sam.c.o tests/check_sider.p/check_sider_set.c.o tests/check_sider.p/check_sider_str.c.o tests/check_sider.p/check_sider_utils.c.o tests/check_sider.p/check_sider_vcf.c.o tests/check_sider.p/check_sider_wrapper.c.o -Wl,--as-needed -Wl,--no-undefined -Wl,-z,relro -Wl,-z,now -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,--start-group src/libsider.a -pthread /usr/lib/aarch64-linux-gnu/libsqlite3.so /usr/lib/aarch64-linux-gnu/libhts.so /usr/lib/aarch64-linux-gnu/libz.so -lm -ldl /usr/lib/aarch64-linux-gnu/libcheck_pic.a -lrt /usr/lib/aarch64-linux-gnu/libsubunit.so -Wl,--end-group dh_auto_test cd obj-aarch64-linux-gnu && DEB_PYTHON_INSTALL_LAYOUT=deb LC_ALL=C.UTF-8 MESON_TESTTHREADS=12 meson test --verbose ninja: Entering directory `/build/reproducible-path/sideretro-1.1.6/obj-aarch64-linux-gnu' [1/65] Generating config.h with a custom command 1/1 all RUNNING >>> ASAN_OPTIONS=halt_on_error=1:abort_on_error=1:print_summary=1 MALLOC_PERTURB_=169 UBSAN_OPTIONS=halt_on_error=1:abort_on_error=1:print_summary=1:print_stacktrace=1 MSAN_OPTIONS=halt_on_error=1:abort_on_error=1:print_summary=1:print_stacktrace=1 MESON_TEST_ITERATION=1 /build/reproducible-path/sideretro-1.1.6/obj-aarch64-linux-gnu/tests/check_sider ――――――――――――――――――――――――――――――――――――― ✀ ――――――――――――――――――――――――――――――――――――― Running suite(s): ProcessSample ok 1 - ../tests/check_sider_process_sample.c:Core:test_sider: Passed List ok 2 - ../tests/check_sider_list.c:Core:test_list_new: Passed ok 3 - ../tests/check_sider_list.c:Core:test_list_ins_prev: Passed ok 4 - ../tests/check_sider_list.c:Core:test_list_ins_next: Passed ok 5 - ../tests/check_sider_list.c:Core:test_list_ins_prev_link: Passed ok 6 - ../tests/check_sider_list.c:Core:test_list_ins_next_link: Passed ok 7 - ../tests/check_sider_list.c:Core:test_list_remove: Passed ok 8 - ../tests/check_sider_list.c:Core:test_list_remove_link: Passed ok 9 - ../tests/check_sider_list.c:Core:test_list_foreach: Passed Hash ok 10 - ../tests/check_sider_hash.c:Core:test_hash_free: Passed ok 11 - ../tests/check_sider_hash.c:Core:test_hash_insert: Passed ok 12 - ../tests/check_sider_hash.c:Core:test_hash_lookup: Passed ok 13 - ../tests/check_sider_hash.c:Core:test_hash_replace: Passed ok 14 - ../tests/check_sider_hash.c:Core:test_hash_remove: Passed ok 15 - ../tests/check_sider_hash.c:Core:test_hash_contains: Passed ok 16 - ../tests/check_sider_hash.c:Core:test_hash_int: Passed ok 17 - ../tests/check_sider_hash.c:Core:test_hash_direct: Passed ok 18 - ../tests/check_sider_hash.c:Core:test_hash_many_insertions: Passed ok 19 - ../tests/check_sider_hash.c:Misc:test_hash_foreach: Passed ok 20 - ../tests/check_sider_hash.c:Misc:test_hash_iter: Passed ok 21 - ../tests/check_sider_hash.c:Misc:test_hash_get_keys_as_list: Passed ok 22 - ../tests/check_sider_hash.c:Misc:test_hash_get_values_as_list: Passed ok 23 - ../tests/check_sider_hash.c:Misc:test_hash_get_keys_as_array: Passed ok 24 - ../tests/check_sider_hash.c:Misc:test_hash_get_values_as_array: Passed Array ok 25 - ../tests/check_sider_array.c:CoreFree:test_array: Passed ok 26 - ../tests/check_sider_array.c:CoreFree:test_array_uniq: Passed ok 27 - ../tests/check_sider_array.c:CoreFree:test_array_find_with_equal_fun: Passed ok 28 - ../tests/check_sider_array.c:CoreNull:test_array_find: Passed ok 29 - ../tests/check_sider_array.c:CoreNull:test_array_remove: Passed ok 30 - ../tests/check_sider_array.c:CoreNull:test_array_remove_index: Passed ok 31 - ../tests/check_sider_array.c:Free:test_array_no_free_segment: Passed Utils ok 32 - ../tests/check_sider_utils.c:Core:test_fequal: Passed ok 33 - ../tests/check_sider_utils.c:Core:test_equalstring: Passed ok 34 - ../tests/check_sider_utils.c:Core:test_casequalstring: Passed ok 35 - ../tests/check_sider_utils.c:Core:test_cmpstringp: Passed ok 36 - ../tests/check_sider_utils.c:Core:test_casecmpstringp: Passed ok 37 - ../tests/check_sider_utils.c:Core:test_chomp: Passed ok 38 - ../tests/check_sider_utils.c:Core:test_trimc: Passed ok 39 - ../tests/check_sider_utils.c:Core:test_trim: Passed ok 40 - ../tests/check_sider_utils.c:Core:test_upper: Passed ok 41 - ../tests/check_sider_utils.c:Core:test_lower: Passed ok 42 - ../tests/check_sider_utils.c:Core:test_path_dir: Passed ok 43 - ../tests/check_sider_utils.c:Core:test_path_file: Passed ok 44 - ../tests/check_sider_utils.c:Core:test_which: Passed ok 45 - ../tests/check_sider_utils.c:Core:test_exists: Passed ok 46 - ../tests/check_sider_utils.c:Core:test_xstrdup_concat: Passed ok 47 - ../tests/check_sider_utils.c:Core:test_xasprintf_concat: Passed ok 48 - ../tests/check_sider_utils.c:Core:test_mkdir_p: Passed ok 49 - ../tests/check_sider_utils.c:Core:test_setup_signal: Passed ok 50 - ../tests/check_sider_utils.c:Core:test_buf_expand: Passed ok 51 - ../tests/check_sider_utils.c:Core:test_entry_size: Passed SAM ok 52 - ../tests/check_sider_sam.c:Core:test_sam_to_bam: Passed ok 53 - ../tests/check_sider_sam.c:Core:test_sam_to_bam_fp: Passed ok 54 - ../tests/check_sider_sam.c:Core:test_sam_test_sorted_order: Passed BiTree ok 55 - ../tests/check_sider_bitree.c:Core:test_bitree: Passed IBiTree ok 56 - ../tests/check_sider_ibitree.c:Core:test_ibitree_insert: Passed ok 57 - ../tests/check_sider_ibitree.c:Core:test_ibitree_lookup: Passed ok 58 - ../tests/check_sider_ibitree.c:Core:test_ibitree_lookup_frac: Passed ok 59 - ../tests/check_sider_ibitree.c:Core:test_ibitree_lookup_either: Passed String ok 60 - ../tests/check_sider_str.c:Core:test_string_new: Passed ok 61 - ../tests/check_sider_str.c:Core:test_string_sized_new: Passed ok 62 - ../tests/check_sider_str.c:Core:test_string_set: Passed ok 63 - ../tests/check_sider_str.c:Core:test_string_concat: Passed ok 64 - ../tests/check_sider_str.c:Core:test_string_printf: Passed ok 65 - ../tests/check_sider_str.c:Core:test_string_concat_printf: Passed ok 66 - ../tests/check_sider_str.c:Core:test_string_free: Passed ok 67 - ../tests/check_sider_str.c:Core:test_string_clear: Passed DB ok 68 - ../tests/check_sider_db.c:Core:test_db_open: Passed ok 69 - ../tests/check_sider_db.c:Core:test_db_exec: Passed ok 70 - ../tests/check_sider_db.c:Core:test_db_prepare: Passed ok 71 - ../tests/check_sider_db.c:Core:test_db_schema: Passed ok 72 - ../tests/check_sider_db.c:Abort:test_db_open_abort: Passed ok 73 - ../tests/check_sider_db.c:Abort:test_db_close_abort: Passed ok 74 - ../tests/check_sider_db.c:Abort:test_db_exec_abort: Passed ok 75 - ../tests/check_sider_db.c:Abort:test_db_prepare_abort: Passed ok 76 - ../tests/check_sider_db.c:Abort:test_db_step_abort: Passed ok 77 - ../tests/check_sider_db.c:Abort:test_db_reset_abort: Passed ok 78 - ../tests/check_sider_db.c:Abort:test_db_bind_int_abort: Passed ok 79 - ../tests/check_sider_db.c:Abort:test_db_bind_int64_abort: Passed ok 80 - ../tests/check_sider_db.c:Abort:test_db_bind_double_abort: Passed ok 81 - ../tests/check_sider_db.c:Abort:test_db_bind_text_abort: Passed ok 82 - ../tests/check_sider_db.c:Abort:test_db_column_int_abort: Passed ok 83 - ../tests/check_sider_db.c:Abort:test_db_column_int64_abort: Passed ok 84 - ../tests/check_sider_db.c:Abort:test_db_column_double_abort: Passed ok 85 - ../tests/check_sider_db.c:Abort:test_db_column_text_abort: Passed Chr ok 86 - ../tests/check_sider_chr.c:Core:test_chr_std_lookup: Passed Exon ok 87 - ../tests/check_sider_exon.c:Core:test_exon_tree_index_dump: Passed ok 88 - ../tests/check_sider_exon.c:Core:test_exon_tree_lookup_dump: Passed Abnormal ok 89 - ../tests/check_sider_abnormal.c:Core:test_abnormal_filter_sorted: Passed ok 90 - ../tests/check_sider_abnormal.c:Core:test_abnormal_filter_unsorted: Passed GFF ok 91 - ../tests/check_sider_gff.c:Core:test_gff_header: Passed ok 92 - ../tests/check_sider_gff.c:Core:test_gff_read: Passed ok 93 - ../tests/check_sider_gff.c:Core:test_gff_filter: Passed ok 94 - ../tests/check_sider_gff.c:Core:test_gff_looks_like_gff_file: Passed ok 95 - ../tests/check_sider_gff.c:Abort:test_open_fatal: Passed ok 96 - ../tests/check_sider_gff.c:Abort:test_seqname_fatal: Passed ok 97 - ../tests/check_sider_gff.c:Abort:test_source_fatal: Passed ok 98 - ../tests/check_sider_gff.c:Abort:test_feature_fatal: Passed ok 99 - ../tests/check_sider_gff.c:Abort:test_start_fatal: Passed ok 100 - ../tests/check_sider_gff.c:Abort:test_end_fatal: Passed ok 101 - ../tests/check_sider_gff.c:Abort:test_score_fatal: Passed ok 102 - ../tests/check_sider_gff.c:Abort:test_strand_fatal: Passed ok 103 - ../tests/check_sider_gff.c:Abort:test_frame_fatal: Passed ok 104 - ../tests/check_sider_gff.c:Abort:test_key_value_fatal: Passed ok 105 - ../tests/check_sider_gff.c:Abort:test_close_fatal: Passed IO ok 106 - ../tests/check_sider_io.c:Core:test_read_file_lines: Passed DBSCAN ok 107 - ../tests/check_sider_dbscan.c:Core:test_dbscan: Passed Cluster ok 108 - ../tests/check_sider_cluster.c:Core:test_cluster_without_genotype_support: Passed ok 109 - ../tests/check_sider_cluster.c:Core:test_cluster_with_genotype_support: Passed Wrapper ok 110 - ../tests/check_sider_wrapper.c:Core:test_xmalloc: Passed ok 111 - ../tests/check_sider_wrapper.c:Core:test_xcalloc: Passed ok 112 - ../tests/check_sider_wrapper.c:Core:test_xrealloc: Passed ok 113 - ../tests/check_sider_wrapper.c:Core:test_xstrdup: Passed ok 114 - ../tests/check_sider_wrapper.c:Core:test_xfree: Passed ok 115 - ../tests/check_sider_wrapper.c:Core:test_xfopen: Passed ok 116 - ../tests/check_sider_wrapper.c:Core:test_xfdopen: Passed ok 117 - ../tests/check_sider_wrapper.c:Core:test_xfclose: Passed ok 118 - ../tests/check_sider_wrapper.c:Core:test_xfflush: Passed ok 119 - ../tests/check_sider_wrapper.c:Core:test_xpopen: Passed ok 120 - ../tests/check_sider_wrapper.c:Core:test_xmkdir: Passed ok 121 - ../tests/check_sider_wrapper.c:Core:test_xasprintf: Passed ok 122 - ../tests/check_sider_wrapper.c:Core:test_xfprintf: Passed ok 123 - ../tests/check_sider_wrapper.c:Core:test_xsigaction: Passed ok 124 - ../tests/check_sider_wrapper.c:Abort:test_xfopen_rw_abort: Passed ok 125 - ../tests/check_sider_wrapper.c:Abort:test_xfopen_w_abort: Passed ok 126 - ../tests/check_sider_wrapper.c:Abort:test_xfopen_r_abort: Passed ok 127 - ../tests/check_sider_wrapper.c:Abort:test_xfdopen_rw_abort: Passed ok 128 - ../tests/check_sider_wrapper.c:Abort:test_xfdopen_w_abort: Passed ok 129 - ../tests/check_sider_wrapper.c:Abort:test_xfdopen_r_abort: Passed ok 130 - ../tests/check_sider_wrapper.c:Abort:test_xmkdir_abort: Passed ok 131 - ../tests/check_sider_wrapper.c:Abort:test_xsigaction_abort: Passed ok 132 - ../tests/check_sider_wrapper.c:Abort:test_xpopen_r_abort: Passed ok 133 - ../tests/check_sider_wrapper.c:Abort:test_xpopen_w_abort: Passed DBMerge ok 134 - ../tests/check_sider_db_merge.c:Core:test_db_merge: Passed ok 135 - ../tests/check_sider_db_merge.c:Core:test_db_merge_in_line: Passed Set ok 136 - ../tests/check_sider_set.c:Core:test_set_free: Passed ok 137 - ../tests/check_sider_set.c:Core:test_set_insert: Passed ok 138 - ../tests/check_sider_set.c:Core:test_set_remove: Passed ok 139 - ../tests/check_sider_set.c:Core:test_set_union: Passed ok 140 - ../tests/check_sider_set.c:Core:test_set_intersection: Passed ok 141 - ../tests/check_sider_set.c:Core:test_set_difference: Passed ok 142 - ../tests/check_sider_set.c:Core:test_set_is_subset: Passed ok 143 - ../tests/check_sider_set.c:Core:test_set_is_equal: Passed ok 144 - ../tests/check_sider_set.c:Core:test_set_is_member: Passed Correlation ok 145 - ../tests/check_sider_correlation.c:Core:test_pearson: Passed ok 146 - ../tests/check_sider_correlation.c:Core:test_spearman: Passed ok 147 - ../tests/check_sider_correlation.c:Core:test_spearman_eq: Passed ok 148 - ../tests/check_sider_correlation.c:Core:test_spearman_permutation_test: Passed BED ok 149 - ../tests/check_sider_bed.c:Core:test_bed_header: Passed ok 150 - ../tests/check_sider_bed.c:Core:test_beds: Passed ok 151 - ../tests/check_sider_bed.c:Core:test_beds: Passed ok 152 - ../tests/check_sider_bed.c:Core:test_beds: Passed ok 153 - ../tests/check_sider_bed.c:Core:test_beds: Passed ok 154 - ../tests/check_sider_bed.c:Core:test_beds: Passed ok 155 - ../tests/check_sider_bed.c:Core:test_beds: Passed ok 156 - ../tests/check_sider_bed.c:Core:test_beds: Passed ok 157 - ../tests/check_sider_bed.c:Core:test_beds: Passed ok 158 - ../tests/check_sider_bed.c:Core:test_beds: Passed ok 159 - ../tests/check_sider_bed.c:Core:test_beds: Passed ok 160 - ../tests/check_sider_bed.c:Abort:test_open_fatal: Passed ok 161 - ../tests/check_sider_bed.c:Abort:test_chrom_fatal: Passed ok 162 - ../tests/check_sider_bed.c:Abort:test_chrom_start_fatal: Passed ok 163 - ../tests/check_sider_bed.c:Abort:test_chrom_end_fatal: Passed ok 164 - ../tests/check_sider_bed.c:Abort:test_close_fatal: Passed Blacklist ok 165 - ../tests/check_sider_blacklist.c:Core:test_blacklist_index_dump_from_gff: Passed ok 166 - ../tests/check_sider_blacklist.c:Core:test_blacklist_index_dump_from_bed: Passed ok 167 - ../tests/check_sider_blacklist.c:Core:test_blacklist_lookup: Passed Retrocopy ok 168 - ../tests/check_sider_retrocopy.c:Core:test_retrocopy: Passed Dedup ok 169 - ../tests/check_sider_dedup.c:Core:test_dedup: Passed Genotype [E::idx_find_and_load] Could not retrieve index file for '/tmp/ponga_unsorted.bam.ogkRwy' ok 170 - ../tests/check_sider_genotype.c:Core:test_genotype: Passed FASTA ok 171 - ../tests/check_sider_fasta.c:Core:test_fasta_read: Passed ok 172 - ../tests/check_sider_fasta.c:Core:test_empty_file: Passed ok 173 - ../tests/check_sider_fasta.c:Abort:test_open_fatal: Passed ok 174 - ../tests/check_sider_fasta.c:Abort:test_contig_fatal: Passed ok 175 - ../tests/check_sider_fasta.c:Abort:test_seq1_fatal: Passed ok 176 - ../tests/check_sider_fasta.c:Abort:test_seq2_fatal: Passed ok 177 - ../tests/check_sider_fasta.c:Abort:test_close_fatal: Passed VCF ok 178 - ../tests/check_sider_vcf.c:Core:test_vcf: Passed GZ ok 179 - ../tests/check_sider_gz.c:Core:test_read1: Passed ok 180 - ../tests/check_sider_gz.c:Core:test_read2: Passed ok 181 - ../tests/check_sider_gz.c:Core:test_read_long_line: Passed ok 182 - ../tests/check_sider_gz.c:Abort:test_open_fatal: Passed ok 183 - ../tests/check_sider_gz.c:Abort:test_close_fatal: Passed ok 184 - ../tests/check_sider_gz.c:Abort:test_read_fatal1: Passed ok 185 - ../tests/check_sider_gz.c:Abort:test_read_fatal2: Passed 100%: Checks: 185, Failures: 0, Errors: 0 1..185 ―――――――――――――――――――――――――――――――――――――――――――――――――――――――――――――――――――――――――――――― 1/1 all OK 0.49s Ok: 1 Fail: 0 Full log written to /build/reproducible-path/sideretro-1.1.6/obj-aarch64-linux-gnu/meson-logs/testlog.txt create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install --destdir=debian/sideretro/ cd obj-aarch64-linux-gnu && DESTDIR=/build/reproducible-path/sideretro-1.1.6/debian/sideretro LC_ALL=C.UTF-8 ninja install [1/68] Generating config.h with a custom command [1/2] Installing files Installing src/sider to /build/reproducible-path/sideretro-1.1.6/debian/sideretro/usr/bin Installing docs/sider.1 to /build/reproducible-path/sideretro-1.1.6/debian/sideretro/usr/share/man/man1 dh_installdocs dh_installchangelogs dh_installman dh_perl dh_link dh_strip_nondeterminism dh_compress dh_fixperms dh_missing dh_dwz -a dh_strip -a dh_makeshlibs -a dh_shlibdeps -a 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 dh_gencontrol dh_md5sums dh_builddeb dpkg-deb: building package 'sideretro' in '../sideretro_1.1.6-2_arm64.deb'. dpkg-deb: building package 'sideretro-dbgsym' in '../sideretro-dbgsym_1.1.6-2_arm64.deb'. dpkg-genbuildinfo --build=binary -O../sideretro_1.1.6-2_arm64.buildinfo dpkg-genchanges --build=binary -O../sideretro_1.1.6-2_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: not including original 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/889074 and its subdirectories I: Current time: Tue Oct 20 08:49:39 -12 2026 I: pbuilder-time-stamp: 1792529379 Wed Sep 17 14:26:41 UTC 2025 I: 1st build successful. Starting 2nd build on remote node codethink04-arm64.debian.net. Wed Sep 17 14:26:41 UTC 2025 I: Preparing to do remote build '2' on codethink04-arm64.debian.net. Wed Sep 17 14:26:41 UTC 2025 - checking /var/lib/jenkins/offline_nodes if codethink04-arm64.debian.net is marked as down. Wed Sep 17 14:26:41 UTC 2025 - checking via ssh if codethink04-arm64.debian.net is up. removed '/tmp/read-only-fs-test-5jJNVL' ==================================================================================== Wed Sep 17 14:26:42 UTC 2025 - running /srv/jenkins/bin/reproducible_build.sh (for job /srv/jenkins/bin/reproducible_build.sh) on codethink04-arm64, called using "2 sideretro forky /srv/reproducible-results/rbuild-debian/r-b-build.g8Ofgp54 1.1.6-2" as arguments. Wed Sep 17 14:26:42 UTC 2025 - actually running "reproducible_build.sh" (md5sum cc591790ab2c8e13f5e554202b95c89c) as "/tmp/jenkins-script-DvFnlxEu" $ git clone https://salsa.debian.org/qa/jenkins.debian.net.git ; more CONTRIBUTING Wed Sep 17 14:26:42 UTC 2025 I: Downloading source for forky/sideretro=1.1.6-2 Reading package lists... NOTICE: 'sideretro' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/sideretro.git Please use: git clone https://salsa.debian.org/med-team/sideretro.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 2119 kB of source archives. Get:1 http://deb.debian.org/debian forky/main sideretro 1.1.6-2 (dsc) [2057 B] Get:2 http://deb.debian.org/debian forky/main sideretro 1.1.6-2 (tar) [2109 kB] Get:3 http://deb.debian.org/debian forky/main sideretro 1.1.6-2 (diff) [7404 B] Fetched 2119 kB in 0s (57.4 MB/s) Download complete and in download only mode Reading package lists... NOTICE: 'sideretro' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/sideretro.git Please use: git clone https://salsa.debian.org/med-team/sideretro.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 2119 kB of source archives. Get:1 http://deb.debian.org/debian forky/main sideretro 1.1.6-2 (dsc) [2057 B] Get:2 http://deb.debian.org/debian forky/main sideretro 1.1.6-2 (tar) [2109 kB] Get:3 http://deb.debian.org/debian forky/main sideretro 1.1.6-2 (diff) [7404 B] Fetched 2119 kB in 0s (57.4 MB/s) Download complete and in download only mode ============================================================================= Re-Building sideretro in forky on arm64 on codethink04-arm64 now. Date: Wed Sep 17 15:26:42 BST 2025 Date UTC: Wed Sep 17 14:26:42 UTC 2025 ============================================================================= ++ mktemp -t pbuilderrc_XXXX --tmpdir=/srv/reproducible-results/rbuild-debian/r-b-build.g8Ofgp54 + local TMPCFG=/srv/reproducible-results/rbuild-debian/r-b-build.g8Ofgp54/pbuilderrc_A5Er + case ${ARCH} in + case $ARCH in + locale=nl_BE + language=nl + case "${SUITE}" in + reproducible_buildflags=+all + extra_deb_build_options= + case "${SRCPACKAGE}" in + cat + echo BUILDDIR=/build/reproducible-path + '[' sideretro = debian-installer -o sideretro = debian-installer-netboot-images ']' + pbuilder_options=() + local pbuilder_options + DEBBUILDOPTS=-b + BINARYTARGET= + '[' sideretro = u-boot ']' + case "${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.g8Ofgp54/pbuilderrc_A5Er --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.g8Ofgp54/b2 --logfile b2/build.log sideretro_1.1.6-2.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: Thu Sep 18 04:26:42 +14 2025 I: pbuilder-time-stamp: 1758119202 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 [sideretro_1.1.6-2.dsc] I: copying [./sideretro_1.1.6.orig.tar.gz] I: copying [./sideretro_1.1.6-2.debian.tar.xz] I: Extracting source dpkg-source: warning: cannot verify inline signature for ./sideretro_1.1.6-2.dsc: no acceptable signature found dpkg-source: info: extracting sideretro in sideretro-1.1.6 dpkg-source: info: unpacking sideretro_1.1.6.orig.tar.gz dpkg-source: info: unpacking sideretro_1.1.6-2.debian.tar.xz I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/2210455/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 Sep 17 14:26 /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/2210455/tmp/hooks/D01_modify_environment finished I: user script /srv/workspace/pbuilder/2210455/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=1ef62f4928504c54bcf23d7750ab3919 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=2210455 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.g8Ofgp54/pbuilderrc_A5Er --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.g8Ofgp54/b2 --logfile b2/build.log sideretro_1.1.6-2.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 6.12.43+deb13-cloud-arm64 #1 SMP Debian 6.12.43-1 (2025-08-27) 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/2210455/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: check, cmake, debhelper-compat (= 13), libhts-dev, libsqlite3-dev, meson, pkgconf, python3-sphinx, 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 ... 20020 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 check; however: Package check is not installed. pbuilder-satisfydepends-dummy depends on cmake; however: Package cmake is not installed. pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on libhts-dev; however: Package libhts-dev is not installed. pbuilder-satisfydepends-dummy depends on libsqlite3-dev; however: Package libsqlite3-dev is not installed. pbuilder-satisfydepends-dummy depends on meson; however: Package meson is not installed. pbuilder-satisfydepends-dummy depends on pkgconf; however: Package pkgconf is not installed. pbuilder-satisfydepends-dummy depends on python3-sphinx; however: Package python3-sphinx 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} ca-certificates{a} check{a} cmake{a} cmake-data{a} comerr-dev{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} docutils-common{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} krb5-multidev{a} libarchive-zip-perl{a} libarchive13t64{a} libbrotli-dev{a} libbrotli1{a} libbz2-dev{a} libcom-err2{a} libcurl3t64-gnutls{a} libcurl4-gnutls-dev{a} libcurl4t64{a} libdebhelper-perl{a} libdeflate-dev{a} libdeflate0{a} libelf1t64{a} libevent-2.1-7t64{a} libexpat1{a} libffi8{a} libfile-stripnondeterminism-perl{a} libgmp-dev{a} libgmpxx4ldbl{a} libgnutls-dane0t64{a} libgnutls-openssl27t64{a} libgnutls28-dev{a} libgnutls30t64{a} libgssapi-krb5-2{a} libgssrpc4t64{a} libhts-dev{a} libhts3t64{a} libhtscodecs2{a} libidn2-0{a} libidn2-dev{a} libjs-sphinxdoc{a} libjson-perl{a} libjsoncpp26{a} libk5crypto3{a} libkadm5clnt-mit12{a} libkadm5srv-mit12{a} libkdb5-10t64{a} libkeyutils1{a} libkrb5-3{a} libkrb5-dev{a} libkrb5support0{a} libldap-dev{a} libldap2{a} liblzma-dev{a} libmagic-mgc{a} libmagic1t64{a} libnghttp2-14{a} libnghttp2-dev{a} libnghttp3-9{a} libnghttp3-dev{a} libngtcp2-16{a} libngtcp2-crypto-gnutls-dev{a} libngtcp2-crypto-gnutls8{a} libngtcp2-dev{a} libp11-kit-dev{a} libp11-kit0{a} libpipeline1{a} libpkgconf3{a} libproc2-0{a} libpsl-dev{a} libpsl5t64{a} libpython3-stdlib{a} libpython3.13-minimal{a} libpython3.13-stdlib{a} libreadline8t64{a} librhash1{a} librtmp-dev{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsqlite3-dev{a} libssh2-1-dev{a} libssh2-1t64{a} libssl-dev{a} libsubunit-dev{a} libsubunit0{a} libtasn1-6{a} libtasn1-6-dev{a} libtool{a} libuchardet0{a} libunbound8{a} libunistring5{a} libuv1t64{a} libxml2-16{a} libzstd-dev{a} m4{a} man-db{a} media-types{a} meson{a} netbase{a} nettle-dev{a} ninja-build{a} openssl{a} pkgconf{a} pkgconf-bin{a} po-debconf{a} procps{a} python-babel-localedata{a} python3{a} python3-alabaster{a} python3-autocommand{a} python3-babel{a} python3-certifi{a} python3-chardet{a} python3-charset-normalizer{a} python3-defusedxml{a} python3-docutils{a} python3-idna{a} python3-imagesize{a} python3-inflect{a} python3-jaraco.context{a} python3-jaraco.functools{a} python3-jaraco.text{a} python3-jinja2{a} python3-markupsafe{a} python3-minimal{a} python3-more-itertools{a} python3-packaging{a} python3-pkg-resources{a} python3-pygments{a} python3-requests{a} python3-roman{a} python3-roman-numerals{a} python3-setuptools{a} python3-snowballstemmer{a} python3-sphinx{a} python3-typeguard{a} python3-typing-extensions{a} python3-urllib3{a} python3-zipp{a} python3.13{a} python3.13-minimal{a} readline-common{a} sensible-utils{a} sgml-base{a} sphinx-common{a} tzdata{a} xml-core{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: bzip2-doc curl krb5-locales libarchive-cpio-perl libjson-xs-perl libldap-common libltdl-dev libmail-sendmail-perl libpaper-utils libsasl2-modules libtasn1-doc linux-sysctl-defaults lynx psmisc publicsuffix python3-pil wget 0 packages upgraded, 160 newly installed, 0 to remove and 0 not upgraded. Need to get 65.6 MB of archives. After unpacking 266 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian forky/main arm64 libexpat1 arm64 2.7.1-2 [93.3 kB] Get: 2 http://deb.debian.org/debian forky/main arm64 libpython3.13-minimal arm64 3.13.7-1 [857 kB] Get: 3 http://deb.debian.org/debian forky/main arm64 python3.13-minimal arm64 3.13.7-1 [2001 kB] Get: 4 http://deb.debian.org/debian forky/main arm64 python3-minimal arm64 3.13.7-1 [27.2 kB] Get: 5 http://deb.debian.org/debian forky/main arm64 media-types all 13.0.0 [29.3 kB] Get: 6 http://deb.debian.org/debian forky/main arm64 netbase all 6.5 [12.4 kB] Get: 7 http://deb.debian.org/debian forky/main arm64 tzdata all 2025b-5 [260 kB] Get: 8 http://deb.debian.org/debian forky/main arm64 libffi8 arm64 3.5.2-2 [21.5 kB] Get: 9 http://deb.debian.org/debian forky/main arm64 readline-common all 8.3-3 [74.8 kB] Get: 10 http://deb.debian.org/debian forky/main arm64 libreadline8t64 arm64 8.3-3 [169 kB] Get: 11 http://deb.debian.org/debian forky/main arm64 libpython3.13-stdlib arm64 3.13.7-1 [1895 kB] Get: 12 http://deb.debian.org/debian forky/main arm64 python3.13 arm64 3.13.7-1 [761 kB] Get: 13 http://deb.debian.org/debian forky/main arm64 libpython3-stdlib arm64 3.13.7-1 [10.2 kB] Get: 14 http://deb.debian.org/debian forky/main arm64 python3 arm64 3.13.7-1 [28.3 kB] Get: 15 http://deb.debian.org/debian forky/main arm64 libproc2-0 arm64 2:4.0.4-9 [62.8 kB] Get: 16 http://deb.debian.org/debian forky/main arm64 procps arm64 2:4.0.4-9 [871 kB] Get: 17 http://deb.debian.org/debian forky/main arm64 sensible-utils all 0.0.26 [27.0 kB] Get: 18 http://deb.debian.org/debian forky/main arm64 openssl arm64 3.5.2-1 [1457 kB] Get: 19 http://deb.debian.org/debian forky/main arm64 ca-certificates all 20250419 [162 kB] Get: 20 http://deb.debian.org/debian forky/main arm64 libmagic-mgc arm64 1:5.46-5 [338 kB] Get: 21 http://deb.debian.org/debian forky/main arm64 libmagic1t64 arm64 1:5.46-5 [103 kB] Get: 22 http://deb.debian.org/debian forky/main arm64 file arm64 1:5.46-5 [43.7 kB] Get: 23 http://deb.debian.org/debian forky/main arm64 gettext-base arm64 0.23.1-2+b1 [241 kB] Get: 24 http://deb.debian.org/debian forky/main arm64 libuchardet0 arm64 0.0.8-2 [69.0 kB] Get: 25 http://deb.debian.org/debian forky/main arm64 groff-base arm64 1.23.0-9 [1130 kB] Get: 26 http://deb.debian.org/debian forky/main arm64 bsdextrautils arm64 2.41.1-3 [98.1 kB] Get: 27 http://deb.debian.org/debian forky/main arm64 libpipeline1 arm64 1.5.8-1 [40.2 kB] Get: 28 http://deb.debian.org/debian forky/main arm64 man-db arm64 2.13.1-1 [1453 kB] Get: 29 http://deb.debian.org/debian forky/main arm64 m4 arm64 1.4.20-1 [316 kB] Get: 30 http://deb.debian.org/debian forky/main arm64 autoconf all 2.72-3.1 [494 kB] Get: 31 http://deb.debian.org/debian forky/main arm64 autotools-dev all 20240727.1 [60.2 kB] Get: 32 http://deb.debian.org/debian forky/main arm64 automake all 1:1.17-4 [862 kB] Get: 33 http://deb.debian.org/debian forky/main arm64 autopoint all 0.23.1-2 [770 kB] Get: 34 http://deb.debian.org/debian forky/main arm64 libsubunit0 arm64 1.4.2-3+b1 [6520 B] Get: 35 http://deb.debian.org/debian forky/main arm64 libsubunit-dev arm64 1.4.2-3+b1 [7416 B] Get: 36 http://deb.debian.org/debian forky/main arm64 check arm64 0.15.2-3 [112 kB] Get: 37 http://deb.debian.org/debian forky/main arm64 cmake-data all 4.1.1+really3.31.6-1 [2268 kB] Get: 38 http://deb.debian.org/debian forky/main arm64 libxml2-16 arm64 2.14.5+dfsg-0.2 [582 kB] Get: 39 http://deb.debian.org/debian forky/main arm64 libarchive13t64 arm64 3.7.4-4+b1 [323 kB] Get: 40 http://deb.debian.org/debian forky/main arm64 libbrotli1 arm64 1.1.0-2+b7 [308 kB] Get: 41 http://deb.debian.org/debian forky/main arm64 libkrb5support0 arm64 1.21.3-5 [32.4 kB] Get: 42 http://deb.debian.org/debian forky/main arm64 libcom-err2 arm64 1.47.2-3+b3 [24.9 kB] Get: 43 http://deb.debian.org/debian forky/main arm64 libk5crypto3 arm64 1.21.3-5 [81.2 kB] Get: 44 http://deb.debian.org/debian forky/main arm64 libkeyutils1 arm64 1.6.3-6 [9716 B] Get: 45 http://deb.debian.org/debian forky/main arm64 libkrb5-3 arm64 1.21.3-5 [308 kB] Get: 46 http://deb.debian.org/debian forky/main arm64 libgssapi-krb5-2 arm64 1.21.3-5 [127 kB] Get: 47 http://deb.debian.org/debian forky/main arm64 libunistring5 arm64 1.3-2 [453 kB] Get: 48 http://deb.debian.org/debian forky/main arm64 libidn2-0 arm64 2.3.8-4 [108 kB] Get: 49 http://deb.debian.org/debian forky/main arm64 libsasl2-modules-db arm64 2.1.28+dfsg1-9 [20.1 kB] Get: 50 http://deb.debian.org/debian forky/main arm64 libsasl2-2 arm64 2.1.28+dfsg1-9 [55.6 kB] Get: 51 http://deb.debian.org/debian forky/main arm64 libldap2 arm64 2.6.10+dfsg-1 [179 kB] Get: 52 http://deb.debian.org/debian forky/main arm64 libnghttp2-14 arm64 1.64.0-1.1+b1 [71.7 kB] Get: 53 http://deb.debian.org/debian forky/main arm64 libnghttp3-9 arm64 1.11.0-1 [66.7 kB] Get: 54 http://deb.debian.org/debian forky/main arm64 libpsl5t64 arm64 0.21.2-1.1+b1 [57.1 kB] Get: 55 http://deb.debian.org/debian forky/main arm64 libp11-kit0 arm64 0.25.5-3 [409 kB] Get: 56 http://deb.debian.org/debian forky/main arm64 libtasn1-6 arm64 4.20.0-2 [47.3 kB] Get: 57 http://deb.debian.org/debian forky/main arm64 libgnutls30t64 arm64 3.8.9-3 [1375 kB] Get: 58 http://deb.debian.org/debian forky/main arm64 librtmp1 arm64 2.4+20151223.gitfa8646d.1-3 [56.3 kB] Get: 59 http://deb.debian.org/debian forky/main arm64 libssh2-1t64 arm64 1.11.1-1 [235 kB] Get: 60 http://deb.debian.org/debian forky/main arm64 libcurl4t64 arm64 8.15.0-1 [360 kB] Get: 61 http://deb.debian.org/debian forky/main arm64 libjsoncpp26 arm64 1.9.6-4 [73.2 kB] Get: 62 http://deb.debian.org/debian forky/main arm64 librhash1 arm64 1.4.6-1 [131 kB] Get: 63 http://deb.debian.org/debian forky/main arm64 libuv1t64 arm64 1.51.0-2 [150 kB] Get: 64 http://deb.debian.org/debian forky/main arm64 cmake arm64 4.1.1+really3.31.6-1 [9905 kB] Get: 65 http://deb.debian.org/debian forky/main arm64 comerr-dev arm64 2.1-1.47.2-3+b3 [56.9 kB] Get: 66 http://deb.debian.org/debian forky/main arm64 libdebhelper-perl all 13.26 [91.8 kB] Get: 67 http://deb.debian.org/debian forky/main arm64 libtool all 2.5.4-5 [540 kB] Get: 68 http://deb.debian.org/debian forky/main arm64 dh-autoreconf all 20 [17.1 kB] Get: 69 http://deb.debian.org/debian forky/main arm64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 70 http://deb.debian.org/debian forky/main arm64 libfile-stripnondeterminism-perl all 1.15.0-1 [19.9 kB] Get: 71 http://deb.debian.org/debian forky/main arm64 dh-strip-nondeterminism all 1.15.0-1 [8812 B] Get: 72 http://deb.debian.org/debian forky/main arm64 libelf1t64 arm64 0.193-3 [189 kB] Get: 73 http://deb.debian.org/debian forky/main arm64 dwz arm64 0.16-2 [100 kB] Get: 74 http://deb.debian.org/debian forky/main arm64 gettext arm64 0.23.1-2+b1 [1612 kB] Get: 75 http://deb.debian.org/debian forky/main arm64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 76 http://deb.debian.org/debian forky/main arm64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 77 http://deb.debian.org/debian forky/main arm64 debhelper all 13.26 [939 kB] Get: 78 http://deb.debian.org/debian forky/main arm64 sgml-base all 1.31+nmu1 [10.9 kB] Get: 79 http://deb.debian.org/debian forky/main arm64 xml-core all 0.19 [20.1 kB] Get: 80 http://deb.debian.org/debian forky/main arm64 docutils-common all 0.21.2+dfsg-2 [128 kB] Get: 81 http://deb.debian.org/debian forky/main arm64 libgssrpc4t64 arm64 1.21.3-5 [57.2 kB] Get: 82 http://deb.debian.org/debian forky/main arm64 libkadm5clnt-mit12 arm64 1.21.3-5 [41.1 kB] Get: 83 http://deb.debian.org/debian forky/main arm64 libkdb5-10t64 arm64 1.21.3-5 [41.3 kB] Get: 84 http://deb.debian.org/debian forky/main arm64 libkadm5srv-mit12 arm64 1.21.3-5 [53.0 kB] Get: 85 http://deb.debian.org/debian forky/main arm64 krb5-multidev arm64 1.21.3-5 [126 kB] Get: 86 http://deb.debian.org/debian forky/main arm64 libbrotli-dev arm64 1.1.0-2+b7 [308 kB] Get: 87 http://deb.debian.org/debian forky/main arm64 libbz2-dev arm64 1.0.8-6 [31.9 kB] Get: 88 http://deb.debian.org/debian forky/main arm64 libngtcp2-16 arm64 1.15.1-1 [122 kB] Get: 89 http://deb.debian.org/debian forky/main arm64 libngtcp2-crypto-gnutls8 arm64 1.15.1-1 [18.6 kB] Get: 90 http://deb.debian.org/debian forky/main arm64 libcurl3t64-gnutls arm64 8.15.0-1 [355 kB] Get: 91 http://deb.debian.org/debian forky/main arm64 libevent-2.1-7t64 arm64 2.1.12-stable-10+b1 [170 kB] Get: 92 http://deb.debian.org/debian forky/main arm64 libunbound8 arm64 1.23.1-1 [561 kB] Get: 93 http://deb.debian.org/debian forky/main arm64 libgnutls-dane0t64 arm64 3.8.9-3 [453 kB] Get: 94 http://deb.debian.org/debian forky/main arm64 libgnutls-openssl27t64 arm64 3.8.9-3 [453 kB] Get: 95 http://deb.debian.org/debian forky/main arm64 libidn2-dev arm64 2.3.8-4 [102 kB] Get: 96 http://deb.debian.org/debian forky/main arm64 libp11-kit-dev arm64 0.25.5-3 [208 kB] Get: 97 http://deb.debian.org/debian forky/main arm64 libtasn1-6-dev arm64 4.20.0-2 [96.7 kB] Get: 98 http://deb.debian.org/debian forky/main arm64 libgmpxx4ldbl arm64 2:6.3.0+dfsg-5 [329 kB] Get: 99 http://deb.debian.org/debian forky/main arm64 libgmp-dev arm64 2:6.3.0+dfsg-5 [621 kB] Get: 100 http://deb.debian.org/debian forky/main arm64 nettle-dev arm64 3.10.1-1 [1325 kB] Get: 101 http://deb.debian.org/debian forky/main arm64 libgnutls28-dev arm64 3.8.9-3 [1416 kB] Get: 102 http://deb.debian.org/debian forky/main arm64 libkrb5-dev arm64 1.21.3-5 [16.1 kB] Get: 103 http://deb.debian.org/debian forky/main arm64 libldap-dev arm64 2.6.10+dfsg-1 [305 kB] Get: 104 http://deb.debian.org/debian forky/main arm64 libpkgconf3 arm64 1.8.1-4 [35.3 kB] Get: 105 http://deb.debian.org/debian forky/main arm64 pkgconf-bin arm64 1.8.1-4 [29.6 kB] Get: 106 http://deb.debian.org/debian forky/main arm64 pkgconf arm64 1.8.1-4 [26.1 kB] Get: 107 http://deb.debian.org/debian forky/main arm64 libnghttp2-dev arm64 1.64.0-1.1+b1 [112 kB] Get: 108 http://deb.debian.org/debian forky/main arm64 libnghttp3-dev arm64 1.11.0-1 [94.6 kB] Get: 109 http://deb.debian.org/debian forky/main arm64 libngtcp2-crypto-gnutls-dev arm64 1.15.1-1 [24.5 kB] Get: 110 http://deb.debian.org/debian forky/main arm64 libngtcp2-dev arm64 1.15.1-1 [179 kB] Get: 111 http://deb.debian.org/debian forky/main arm64 libpsl-dev arm64 0.21.2-1.1+b1 [77.9 kB] Get: 112 http://deb.debian.org/debian forky/main arm64 zlib1g-dev arm64 1:1.3.dfsg+really1.3.1-1+b1 [917 kB] Get: 113 http://deb.debian.org/debian forky/main arm64 librtmp-dev arm64 2.4+20151223.gitfa8646d.1-3 [173 kB] Get: 114 http://deb.debian.org/debian forky/main arm64 libssl-dev arm64 3.5.2-1 [3386 kB] Get: 115 http://deb.debian.org/debian forky/main arm64 libssh2-1-dev arm64 1.11.1-1 [388 kB] Get: 116 http://deb.debian.org/debian forky/main arm64 libzstd-dev arm64 1.5.7+dfsg-1.1 [335 kB] Get: 117 http://deb.debian.org/debian forky/main arm64 libcurl4-gnutls-dev arm64 8.15.0-1 [490 kB] Get: 118 http://deb.debian.org/debian forky/main arm64 libdeflate0 arm64 1.23-2 [42.4 kB] Get: 119 http://deb.debian.org/debian forky/main arm64 libdeflate-dev arm64 1.23-2 [51.3 kB] Get: 120 http://deb.debian.org/debian forky/main arm64 libhtscodecs2 arm64 1.6.1-2 [74.7 kB] Get: 121 http://deb.debian.org/debian forky/main arm64 libhts3t64 arm64 1.22.1+ds2-1 [434 kB] Get: 122 http://deb.debian.org/debian forky/main arm64 liblzma-dev arm64 5.8.1-1.1 [344 kB] Get: 123 http://deb.debian.org/debian forky/main arm64 libhts-dev arm64 1.22.1+ds2-1 [1684 kB] Get: 124 http://deb.debian.org/debian forky/main arm64 libjs-sphinxdoc all 8.2.3-6 [27.5 kB] Get: 125 http://deb.debian.org/debian forky/main arm64 libjson-perl all 4.10000-1 [87.5 kB] Get: 126 http://deb.debian.org/debian forky/main arm64 libsqlite3-dev arm64 3.46.1-8 [1098 kB] Get: 127 http://deb.debian.org/debian forky/main arm64 ninja-build arm64 1.12.1-1+b1 [130 kB] Get: 128 http://deb.debian.org/debian forky/main arm64 python3-autocommand all 2.2.2-3 [13.6 kB] Get: 129 http://deb.debian.org/debian forky/main arm64 python3-more-itertools all 10.8.0-1 [71.7 kB] Get: 130 http://deb.debian.org/debian forky/main arm64 python3-typing-extensions all 4.15.0-1 [92.4 kB] Get: 131 http://deb.debian.org/debian forky/main arm64 python3-typeguard all 4.4.4-1 [37.1 kB] Get: 132 http://deb.debian.org/debian forky/main arm64 python3-inflect all 7.5.0-1 [33.0 kB] Get: 133 http://deb.debian.org/debian forky/main arm64 python3-jaraco.context all 6.0.1-1 [8276 B] Get: 134 http://deb.debian.org/debian forky/main arm64 python3-jaraco.functools all 4.1.0-1 [12.0 kB] Get: 135 http://deb.debian.org/debian forky/main arm64 python3-pkg-resources all 78.1.1-0.1 [224 kB] Get: 136 http://deb.debian.org/debian forky/main arm64 python3-jaraco.text all 4.0.0-1 [11.4 kB] Get: 137 http://deb.debian.org/debian forky/main arm64 python3-zipp all 3.23.0-1 [11.0 kB] Get: 138 http://deb.debian.org/debian forky/main arm64 python3-setuptools all 78.1.1-0.1 [738 kB] Get: 139 http://deb.debian.org/debian forky/main arm64 meson all 1.9.0-1 [664 kB] Get: 140 http://deb.debian.org/debian forky/main arm64 python-babel-localedata all 2.17.0-1 [6050 kB] Get: 141 http://deb.debian.org/debian forky/main arm64 python3-alabaster all 0.7.16-0.1 [27.9 kB] Get: 142 http://deb.debian.org/debian forky/main arm64 python3-babel all 2.17.0-1 [117 kB] Get: 143 http://deb.debian.org/debian forky/main arm64 python3-certifi all 2025.1.31+ds-1 [9652 B] Get: 144 http://deb.debian.org/debian forky/main arm64 python3-chardet all 5.2.0+dfsg-2 [108 kB] Get: 145 http://deb.debian.org/debian forky/main arm64 python3-charset-normalizer arm64 3.4.3-1 [123 kB] Get: 146 http://deb.debian.org/debian forky/main arm64 python3-defusedxml all 0.7.1-3 [43.4 kB] Get: 147 http://deb.debian.org/debian forky/main arm64 python3-roman all 5.1-1 [11.0 kB] Get: 148 http://deb.debian.org/debian forky/main arm64 python3-docutils all 0.21.2+dfsg-2 [403 kB] Get: 149 http://deb.debian.org/debian forky/main arm64 python3-idna all 3.10-1 [42.0 kB] Get: 150 http://deb.debian.org/debian forky/main arm64 python3-imagesize all 1.4.1-1 [6688 B] Get: 151 http://deb.debian.org/debian forky/main arm64 python3-markupsafe arm64 2.1.5-1+b4 [14.1 kB] Get: 152 http://deb.debian.org/debian forky/main arm64 python3-jinja2 all 3.1.6-1 [107 kB] Get: 153 http://deb.debian.org/debian forky/main arm64 python3-packaging all 25.0-1 [56.6 kB] Get: 154 http://deb.debian.org/debian forky/main arm64 python3-pygments all 2.18.0+dfsg-2 [836 kB] Get: 155 http://deb.debian.org/debian forky/main arm64 python3-urllib3 all 2.5.0-1 [116 kB] Get: 156 http://deb.debian.org/debian forky/main arm64 python3-requests all 2.32.5+dfsg-1 [72.4 kB] Get: 157 http://deb.debian.org/debian forky/main arm64 python3-roman-numerals all 3.1.0-2 [8740 B] Get: 158 http://deb.debian.org/debian forky/main arm64 python3-snowballstemmer all 3.0.1-1 [63.5 kB] Get: 159 http://deb.debian.org/debian forky/main arm64 sphinx-common all 8.2.3-6 [619 kB] Get: 160 http://deb.debian.org/debian forky/main arm64 python3-sphinx all 8.2.3-6 [477 kB] Fetched 65.6 MB in 0s (192 MB/s) Preconfiguring packages ... Selecting previously unselected package libexpat1:arm64. (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 ... 20020 files and directories currently installed.) Preparing to unpack .../libexpat1_2.7.1-2_arm64.deb ... Unpacking libexpat1:arm64 (2.7.1-2) ... Selecting previously unselected package libpython3.13-minimal:arm64. Preparing to unpack .../libpython3.13-minimal_3.13.7-1_arm64.deb ... Unpacking libpython3.13-minimal:arm64 (3.13.7-1) ... 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Adding 'diversion of /lib/aarch64-linux-gnu/libhistory.so.8 to /lib/aarch64-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/aarch64-linux-gnu/libhistory.so.8.2 to /lib/aarch64-linux-gnu/libhistory.so.8.2.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/aarch64-linux-gnu/libreadline.so.8 to /lib/aarch64-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/aarch64-linux-gnu/libreadline.so.8.2 to /lib/aarch64-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64' Unpacking libreadline8t64:arm64 (8.3-3) ... Selecting previously unselected package libpython3.13-stdlib:arm64. Preparing to unpack .../7-libpython3.13-stdlib_3.13.7-1_arm64.deb ... Unpacking libpython3.13-stdlib:arm64 (3.13.7-1) ... Selecting previously unselected package python3.13. Preparing to unpack .../8-python3.13_3.13.7-1_arm64.deb ... Unpacking python3.13 (3.13.7-1) ... 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Selecting previously unselected package libsubunit0:arm64. Preparing to unpack .../020-libsubunit0_1.4.2-3+b1_arm64.deb ... Unpacking libsubunit0:arm64 (1.4.2-3+b1) ... Selecting previously unselected package libsubunit-dev:arm64. Preparing to unpack .../021-libsubunit-dev_1.4.2-3+b1_arm64.deb ... Unpacking libsubunit-dev:arm64 (1.4.2-3+b1) ... Selecting previously unselected package check:arm64. Preparing to unpack .../022-check_0.15.2-3_arm64.deb ... Unpacking check:arm64 (0.15.2-3) ... Selecting previously unselected package cmake-data. Preparing to unpack .../023-cmake-data_4.1.1+really3.31.6-1_all.deb ... Unpacking cmake-data (4.1.1+really3.31.6-1) ... Selecting previously unselected package libxml2-16:arm64. Preparing to unpack .../024-libxml2-16_2.14.5+dfsg-0.2_arm64.deb ... Unpacking libxml2-16:arm64 (2.14.5+dfsg-0.2) ... Selecting previously unselected package libarchive13t64:arm64. Preparing to unpack .../025-libarchive13t64_3.7.4-4+b1_arm64.deb ... Unpacking libarchive13t64:arm64 (3.7.4-4+b1) ... Selecting previously unselected package libbrotli1:arm64. Preparing to unpack .../026-libbrotli1_1.1.0-2+b7_arm64.deb ... Unpacking libbrotli1:arm64 (1.1.0-2+b7) ... Selecting previously unselected package libkrb5support0:arm64. Preparing to unpack .../027-libkrb5support0_1.21.3-5_arm64.deb ... Unpacking libkrb5support0:arm64 (1.21.3-5) ... Selecting previously unselected package libcom-err2:arm64. Preparing to unpack .../028-libcom-err2_1.47.2-3+b3_arm64.deb ... Unpacking libcom-err2:arm64 (1.47.2-3+b3) ... Selecting previously unselected package libk5crypto3:arm64. Preparing to unpack .../029-libk5crypto3_1.21.3-5_arm64.deb ... Unpacking libk5crypto3:arm64 (1.21.3-5) ... Selecting previously unselected package libkeyutils1:arm64. Preparing to unpack .../030-libkeyutils1_1.6.3-6_arm64.deb ... Unpacking libkeyutils1:arm64 (1.6.3-6) ... Selecting previously unselected package libkrb5-3:arm64. 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Running hooks in /etc/ca-certificates/update.d... done. 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/2210455/tmp/hooks/A99_set_merged_usr starting Not re-configuring usrmerge for forky I: user script /srv/workspace/pbuilder/2210455/tmp/hooks/A99_set_merged_usr finished hostname: Name or service not known I: Running cd /build/reproducible-path/sideretro-1.1.6/ && 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 > ../sideretro_1.1.6-2_source.changes dpkg-buildpackage: info: source package sideretro dpkg-buildpackage: info: source version 1.1.6-2 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Daniela Moreira Mombach dpkg-source --before-build . dpkg-buildpackage: info: host architecture arm64 debian/rules clean dh clean dh_clean debian/rules binary dh binary dh_update_autotools_config dh_autoreconf dh_auto_configure cd obj-aarch64-linux-gnu && DEB_PYTHON_INSTALL_LAYOUT=deb LC_ALL=C.UTF-8 meson setup .. --wrap-mode=nodownload --buildtype=plain --prefix=/usr --sysconfdir=/etc --localstatedir=/var --libdir=lib/aarch64-linux-gnu -Dpython.bytecompile=-1 The Meson build system Version: 1.9.0 Source dir: /build/reproducible-path/sideretro-1.1.6 Build dir: /build/reproducible-path/sideretro-1.1.6/obj-aarch64-linux-gnu Build type: native build Project name: sideRETRO Project version: 1.1.6 C compiler for the host machine: cc (gcc 15.2.0 "cc (Debian 15.2.0-3) 15.2.0") C linker for the host machine: cc ld.bfd 2.45 Host machine cpu family: aarch64 Host machine cpu: aarch64 Configuring config.h.in using configuration Library m found: YES Library dl found: YES Run-time dependency threads found: YES Found pkg-config: YES (/usr/bin/pkg-config) 1.8.1 Run-time dependency zlib found: YES 1.3.1 Run-time dependency sqlite3 found: YES 3.46.1 Run-time dependency htslib found: YES 1.22.1 Run-time dependency check found: YES 0.15.2 Program sphinx-build found: YES (/usr/bin/sphinx-build) Message: Generate man page alongside the executable Build targets in project: 5 sideRETRO 1.1.6 User defined options buildtype : plain libdir : lib/aarch64-linux-gnu localstatedir : /var prefix : /usr python.bytecompile: -1 sysconfdir : /etc wrap_mode : nodownload Found ninja-1.12.1 at /usr/bin/ninja dh_auto_build cd obj-aarch64-linux-gnu && LC_ALL=C.UTF-8 ninja -j12 -v [1/70] /usr/bin/meson --internal vcstagger config.h.in config.h 1.1.6 /build/reproducible-path/sideretro-1.1.6 @version@ '(.*)' git describe --tags --dirty=+ [2/70] cc -Isrc/libsider.a.p -Isrc -I../src -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -MD -MQ src/libsider.a.p/blacklist.c.o -MF src/libsider.a.p/blacklist.c.o.d -o src/libsider.a.p/blacklist.c.o -c ../src/blacklist.c [3/70] cc -Isrc/libsider.a.p -Isrc -I../src -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -MD -MQ src/libsider.a.p/chr.c.o -MF src/libsider.a.p/chr.c.o.d -o src/libsider.a.p/chr.c.o -c ../src/chr.c [4/70] cc -Isrc/libsider.a.p -Isrc -I../src -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 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-MD -MQ src/libsider.a.p/bitree.c.o -MF src/libsider.a.p/bitree.c.o.d -o src/libsider.a.p/bitree.c.o -c ../src/bitree.c [10/70] cc -Isrc/libsider.a.p -Isrc -I../src -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -MD -MQ src/libsider.a.p/exon.c.o -MF src/libsider.a.p/exon.c.o.d -o src/libsider.a.p/exon.c.o -c ../src/exon.c [11/70] cc -Isrc/libsider.a.p -Isrc -I../src -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat 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-fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -MD -MQ src/libsider.a.p/logger.c.o -MF src/libsider.a.p/logger.c.o.d -o src/libsider.a.p/logger.c.o -c ../src/logger.c [18/70] cc -Isrc/libsider.a.p -Isrc -I../src -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -MD -MQ src/libsider.a.p/abnormal.c.o -MF src/libsider.a.p/abnormal.c.o.d -o 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-fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -MD -MQ src/libsider.a.p/make_vcf.c.o -MF src/libsider.a.p/make_vcf.c.o.d -o src/libsider.a.p/make_vcf.c.o -c ../src/make_vcf.c [23/70] cc -Isrc/libsider.a.p -Isrc -I../src -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -MD -MQ src/libsider.a.p/thpool.c.o -MF src/libsider.a.p/thpool.c.o.d -o src/libsider.a.p/thpool.c.o -c ../src/thpool.c [24/70] cc -Isrc/libsider.a.p -Isrc -I../src -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -MD -MQ src/libsider.a.p/process_sample.c.o -MF src/libsider.a.p/process_sample.c.o.d -o src/libsider.a.p/process_sample.c.o -c ../src/process_sample.c [25/70] cc -Isrc/libsider.a.p -Isrc -I../src -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -MD -MQ src/libsider.a.p/genotype.c.o -MF src/libsider.a.p/genotype.c.o.d -o src/libsider.a.p/genotype.c.o -c ../src/genotype.c [26/70] cc -Isrc/libsider.a.p -Isrc -I../src -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -MD -MQ src/libsider.a.p/db.c.o -MF src/libsider.a.p/db.c.o.d -o src/libsider.a.p/db.c.o -c ../src/db.c [27/70] cc -Isrc/libsider.a.p -Isrc -I../src -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -MD -MQ src/libsider.a.p/sam.c.o -MF src/libsider.a.p/sam.c.o.d -o src/libsider.a.p/sam.c.o -c ../src/sam.c [28/70] cc -Isrc/libsider.a.p -Isrc -I../src -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -MD -MQ src/libsider.a.p/str.c.o -MF src/libsider.a.p/str.c.o.d -o src/libsider.a.p/str.c.o -c ../src/str.c [29/70] cc -Isrc/libsider.a.p -Isrc -I../src -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC 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-fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_bitree.c.o -MF tests/check_sider.p/check_sider_bitree.c.o.d -o tests/check_sider.p/check_sider_bitree.c.o -c ../tests/check_sider_bitree.c [36/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_abnormal.c.o -MF tests/check_sider.p/check_sider_abnormal.c.o.d -o tests/check_sider.p/check_sider_abnormal.c.o -c ../tests/check_sider_abnormal.c [37/70] cc -Isrc/libsider.a.p -Isrc -I../src -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -MD -MQ src/libsider.a.p/merge_call.c.o -MF src/libsider.a.p/merge_call.c.o.d -o src/libsider.a.p/merge_call.c.o -c ../src/merge_call.c [38/70] cc -Isrc/libsider.a.p -Isrc -I../src -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration 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-Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_bed.c.o -MF tests/check_sider.p/check_sider_bed.c.o.d -o tests/check_sider.p/check_sider_bed.c.o -c ../tests/check_sider_bed.c [41/70] cc -Isrc/libsider.a.p -Isrc -I../src -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -MD -MQ src/libsider.a.p/vcf.c.o -MF src/libsider.a.p/vcf.c.o.d -o src/libsider.a.p/vcf.c.o -c ../src/vcf.c [42/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_blacklist.c.o -MF tests/check_sider.p/check_sider_blacklist.c.o.d -o tests/check_sider.p/check_sider_blacklist.c.o -c ../tests/check_sider_blacklist.c [43/70] rm -f src/libsider.a && gcc-ar csrDT src/libsider.a src/libsider.a.p/abnormal.c.o src/libsider.a.p/array.c.o src/libsider.a.p/bed.c.o src/libsider.a.p/bitree.c.o src/libsider.a.p/blacklist.c.o src/libsider.a.p/chr.c.o src/libsider.a.p/cluster.c.o src/libsider.a.p/correlation.c.o src/libsider.a.p/db.c.o src/libsider.a.p/db_merge.c.o src/libsider.a.p/dbscan.c.o src/libsider.a.p/dedup.c.o src/libsider.a.p/exon.c.o src/libsider.a.p/fasta.c.o src/libsider.a.p/genotype.c.o src/libsider.a.p/gff.c.o src/libsider.a.p/gz.c.o src/libsider.a.p/hash.c.o src/libsider.a.p/ibitree.c.o src/libsider.a.p/io.c.o src/libsider.a.p/list.c.o src/libsider.a.p/log.c.o src/libsider.a.p/logger.c.o src/libsider.a.p/make_vcf.c.o src/libsider.a.p/merge_call.c.o src/libsider.a.p/process_sample.c.o src/libsider.a.p/retrocopy.c.o src/libsider.a.p/sam.c.o src/libsider.a.p/set.c.o src/libsider.a.p/str.c.o src/libsider.a.p/thpool.c.o src/libsider.a.p/utils.c.o src/libsider.a.p/vcf.c.o src/libsider.a.p/wrapper.c.o [44/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration 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[46/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_dbscan.c.o -MF tests/check_sider.p/check_sider_dbscan.c.o.d -o tests/check_sider.p/check_sider_dbscan.c.o -c ../tests/check_sider_dbscan.c [47/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_fasta.c.o -MF tests/check_sider.p/check_sider_fasta.c.o.d -o tests/check_sider.p/check_sider_fasta.c.o -c ../tests/check_sider_fasta.c [48/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_exon.c.o -MF tests/check_sider.p/check_sider_exon.c.o.d -o tests/check_sider.p/check_sider_exon.c.o -c ../tests/check_sider_exon.c [49/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_db_merge.c.o -MF tests/check_sider.p/check_sider_db_merge.c.o.d -o tests/check_sider.p/check_sider_db_merge.c.o -c ../tests/check_sider_db_merge.c [50/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_dedup.c.o -MF tests/check_sider.p/check_sider_dedup.c.o.d -o 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-Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_io.c.o -MF tests/check_sider.p/check_sider_io.c.o.d -o tests/check_sider.p/check_sider_io.c.o -c ../tests/check_sider_io.c [53/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_gz.c.o -MF tests/check_sider.p/check_sider_gz.c.o.d -o tests/check_sider.p/check_sider_gz.c.o -c ../tests/check_sider_gz.c [54/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_process_sample.c.o -MF tests/check_sider.p/check_sider_process_sample.c.o.d -o tests/check_sider.p/check_sider_process_sample.c.o -c ../tests/check_sider_process_sample.c [55/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_genotype.c.o -MF 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[59/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_gff.c.o -MF tests/check_sider.p/check_sider_gff.c.o.d -o tests/check_sider.p/check_sider_gff.c.o -c ../tests/check_sider_gff.c [60/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time 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-Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_vcf.c.o -MF tests/check_sider.p/check_sider_vcf.c.o.d -o tests/check_sider.p/check_sider_vcf.c.o -c ../tests/check_sider_vcf.c [65/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_sam.c.o -MF tests/check_sider.p/check_sider_sam.c.o.d -o tests/check_sider.p/check_sider_sam.c.o -c ../tests/check_sider_sam.c [66/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_str.c.o -MF tests/check_sider.p/check_sider_str.c.o.d -o tests/check_sider.p/check_sider_str.c.o -c ../tests/check_sider_str.c [67/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_wrapper.c.o -MF tests/check_sider.p/check_sider_wrapper.c.o.d -o tests/check_sider.p/check_sider_wrapper.c.o -c ../tests/check_sider_wrapper.c ../tests/check_sider_wrapper.c: In function ‘test_xfprintf_fn’: ../tests/check_sider_wrapper.c:281:9: warning: ignoring return value of ‘fread’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 281 | fread (buf, sizeof (char), str_size, fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../tests/check_sider_wrapper.c: In function ‘test_xfflush_fn’: ../tests/check_sider_wrapper.c:180:9: warning: ignoring return value of ‘fread’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 180 | fread (buf, sizeof (char), str_size, fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [68/70] /usr/bin/sphinx-build -b man /build/reproducible-path/sideretro-1.1.6/docs /build/reproducible-path/sideretro-1.1.6/obj-aarch64-linux-gnu/docs Running Sphinx v8.2.3 WARNING: Invalid configuration value found: 'language = None'. Update your configuration to a valid language code. Falling back to 'en' (English). loading translations [en]... done Converting `source_suffix = '.rst'` to `source_suffix = {'.rst': 'restructuredtext'}`. building [mo]: targets for 0 po files that are out of date writing output... building [man]: all manpages updating environment: [new config] 8 added, 0 changed, 0 removed reading sources... [ 12%] authors reading sources... [ 25%] index reading sources... [ 38%] install reading sources... [ 50%] intro reading sources... [ 62%] method reading sources... [ 75%] result reading sources... [ 88%] retrocopy reading sources... [100%] usage looking for now-outdated files... none found pickling environment... done checking consistency... /build/reproducible-path/sideretro-1.1.6/docs/index.rst: WARNING: document isn't included in any toctree [toc.not_included] done preparing documents... done copying assets... copying assets: done writing... sider.1 { } done build succeeded, 2 warnings. The manual pages are in docs. [69/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_utils.c.o -MF tests/check_sider.p/check_sider_utils.c.o.d -o tests/check_sider.p/check_sider_utils.c.o -c ../tests/check_sider_utils.c [70/70] cc -o tests/check_sider tests/check_sider.p/check_sider_abnormal.c.o tests/check_sider.p/check_sider_array.c.o tests/check_sider.p/check_sider_bed.c.o tests/check_sider.p/check_sider_bitree.c.o tests/check_sider.p/check_sider_blacklist.c.o tests/check_sider.p/check_sider_chr.c.o tests/check_sider.p/check_sider_cluster.c.o tests/check_sider.p/check_sider_correlation.c.o tests/check_sider.p/check_sider_db.c.o tests/check_sider.p/check_sider_db_merge.c.o tests/check_sider.p/check_sider_dbscan.c.o tests/check_sider.p/check_sider_dedup.c.o tests/check_sider.p/check_sider_exon.c.o tests/check_sider.p/check_sider_fasta.c.o tests/check_sider.p/check_sider_genotype.c.o tests/check_sider.p/check_sider_gff.c.o tests/check_sider.p/check_sider_gz.c.o tests/check_sider.p/check_sider_hash.c.o tests/check_sider.p/check_sider_ibitree.c.o tests/check_sider.p/check_sider_io.c.o tests/check_sider.p/check_sider_list.c.o tests/check_sider.p/check_sider_main.c.o tests/check_sider.p/check_sider_process_sample.c.o tests/check_sider.p/check_sider_retrocopy.c.o tests/check_sider.p/check_sider_sam.c.o tests/check_sider.p/check_sider_set.c.o tests/check_sider.p/check_sider_str.c.o tests/check_sider.p/check_sider_utils.c.o tests/check_sider.p/check_sider_vcf.c.o tests/check_sider.p/check_sider_wrapper.c.o -Wl,--as-needed -Wl,--no-undefined -Wl,-z,relro -Wl,-z,now -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,--start-group src/libsider.a -pthread /usr/lib/aarch64-linux-gnu/libsqlite3.so /usr/lib/aarch64-linux-gnu/libhts.so /usr/lib/aarch64-linux-gnu/libz.so -lm -ldl /usr/lib/aarch64-linux-gnu/libcheck_pic.a -lrt /usr/lib/aarch64-linux-gnu/libsubunit.so -Wl,--end-group dh_auto_test cd obj-aarch64-linux-gnu && DEB_PYTHON_INSTALL_LAYOUT=deb LC_ALL=C.UTF-8 MESON_TESTTHREADS=12 meson test --verbose ninja: Entering directory `/build/reproducible-path/sideretro-1.1.6/obj-aarch64-linux-gnu' [1/65] Generating config.h with a custom command 1/1 all RUNNING >>> ASAN_OPTIONS=halt_on_error=1:abort_on_error=1:print_summary=1 MESON_TEST_ITERATION=1 MALLOC_PERTURB_=119 UBSAN_OPTIONS=halt_on_error=1:abort_on_error=1:print_summary=1:print_stacktrace=1 MSAN_OPTIONS=halt_on_error=1:abort_on_error=1:print_summary=1:print_stacktrace=1 /build/reproducible-path/sideretro-1.1.6/obj-aarch64-linux-gnu/tests/check_sider ――――――――――――――――――――――――――――――――――――― ✀ ――――――――――――――――――――――――――――――――――――― Running suite(s): ProcessSample ok 1 - ../tests/check_sider_process_sample.c:Core:test_sider: Passed List ok 2 - ../tests/check_sider_list.c:Core:test_list_new: Passed ok 3 - ../tests/check_sider_list.c:Core:test_list_ins_prev: Passed ok 4 - ../tests/check_sider_list.c:Core:test_list_ins_next: Passed ok 5 - ../tests/check_sider_list.c:Core:test_list_ins_prev_link: Passed ok 6 - ../tests/check_sider_list.c:Core:test_list_ins_next_link: Passed ok 7 - ../tests/check_sider_list.c:Core:test_list_remove: Passed ok 8 - ../tests/check_sider_list.c:Core:test_list_remove_link: Passed ok 9 - ../tests/check_sider_list.c:Core:test_list_foreach: Passed Hash ok 10 - ../tests/check_sider_hash.c:Core:test_hash_free: Passed ok 11 - ../tests/check_sider_hash.c:Core:test_hash_insert: Passed ok 12 - ../tests/check_sider_hash.c:Core:test_hash_lookup: Passed ok 13 - ../tests/check_sider_hash.c:Core:test_hash_replace: Passed ok 14 - ../tests/check_sider_hash.c:Core:test_hash_remove: Passed ok 15 - ../tests/check_sider_hash.c:Core:test_hash_contains: Passed ok 16 - ../tests/check_sider_hash.c:Core:test_hash_int: Passed ok 17 - ../tests/check_sider_hash.c:Core:test_hash_direct: Passed ok 18 - ../tests/check_sider_hash.c:Core:test_hash_many_insertions: Passed ok 19 - ../tests/check_sider_hash.c:Misc:test_hash_foreach: Passed ok 20 - ../tests/check_sider_hash.c:Misc:test_hash_iter: Passed ok 21 - ../tests/check_sider_hash.c:Misc:test_hash_get_keys_as_list: Passed ok 22 - ../tests/check_sider_hash.c:Misc:test_hash_get_values_as_list: Passed ok 23 - ../tests/check_sider_hash.c:Misc:test_hash_get_keys_as_array: Passed ok 24 - ../tests/check_sider_hash.c:Misc:test_hash_get_values_as_array: Passed Array ok 25 - ../tests/check_sider_array.c:CoreFree:test_array: Passed ok 26 - ../tests/check_sider_array.c:CoreFree:test_array_uniq: Passed ok 27 - ../tests/check_sider_array.c:CoreFree:test_array_find_with_equal_fun: Passed ok 28 - ../tests/check_sider_array.c:CoreNull:test_array_find: Passed ok 29 - ../tests/check_sider_array.c:CoreNull:test_array_remove: Passed ok 30 - ../tests/check_sider_array.c:CoreNull:test_array_remove_index: Passed ok 31 - ../tests/check_sider_array.c:Free:test_array_no_free_segment: Passed Utils ok 32 - ../tests/check_sider_utils.c:Core:test_fequal: Passed ok 33 - ../tests/check_sider_utils.c:Core:test_equalstring: Passed ok 34 - ../tests/check_sider_utils.c:Core:test_casequalstring: Passed ok 35 - ../tests/check_sider_utils.c:Core:test_cmpstringp: Passed ok 36 - ../tests/check_sider_utils.c:Core:test_casecmpstringp: Passed ok 37 - ../tests/check_sider_utils.c:Core:test_chomp: Passed ok 38 - ../tests/check_sider_utils.c:Core:test_trimc: Passed ok 39 - ../tests/check_sider_utils.c:Core:test_trim: Passed ok 40 - ../tests/check_sider_utils.c:Core:test_upper: Passed ok 41 - ../tests/check_sider_utils.c:Core:test_lower: Passed ok 42 - ../tests/check_sider_utils.c:Core:test_path_dir: Passed ok 43 - ../tests/check_sider_utils.c:Core:test_path_file: Passed ok 44 - ../tests/check_sider_utils.c:Core:test_which: Passed ok 45 - ../tests/check_sider_utils.c:Core:test_exists: Passed ok 46 - ../tests/check_sider_utils.c:Core:test_xstrdup_concat: Passed ok 47 - ../tests/check_sider_utils.c:Core:test_xasprintf_concat: Passed ok 48 - ../tests/check_sider_utils.c:Core:test_mkdir_p: Passed ok 49 - ../tests/check_sider_utils.c:Core:test_setup_signal: Passed ok 50 - ../tests/check_sider_utils.c:Core:test_buf_expand: Passed ok 51 - ../tests/check_sider_utils.c:Core:test_entry_size: Passed SAM ok 52 - ../tests/check_sider_sam.c:Core:test_sam_to_bam: Passed ok 53 - ../tests/check_sider_sam.c:Core:test_sam_to_bam_fp: Passed ok 54 - ../tests/check_sider_sam.c:Core:test_sam_test_sorted_order: Passed BiTree ok 55 - ../tests/check_sider_bitree.c:Core:test_bitree: Passed IBiTree ok 56 - ../tests/check_sider_ibitree.c:Core:test_ibitree_insert: Passed ok 57 - ../tests/check_sider_ibitree.c:Core:test_ibitree_lookup: Passed ok 58 - ../tests/check_sider_ibitree.c:Core:test_ibitree_lookup_frac: Passed ok 59 - ../tests/check_sider_ibitree.c:Core:test_ibitree_lookup_either: Passed String ok 60 - ../tests/check_sider_str.c:Core:test_string_new: Passed ok 61 - ../tests/check_sider_str.c:Core:test_string_sized_new: Passed ok 62 - ../tests/check_sider_str.c:Core:test_string_set: Passed ok 63 - ../tests/check_sider_str.c:Core:test_string_concat: Passed ok 64 - ../tests/check_sider_str.c:Core:test_string_printf: Passed ok 65 - ../tests/check_sider_str.c:Core:test_string_concat_printf: Passed ok 66 - ../tests/check_sider_str.c:Core:test_string_free: Passed ok 67 - ../tests/check_sider_str.c:Core:test_string_clear: Passed DB ok 68 - ../tests/check_sider_db.c:Core:test_db_open: Passed ok 69 - ../tests/check_sider_db.c:Core:test_db_exec: Passed ok 70 - ../tests/check_sider_db.c:Core:test_db_prepare: Passed ok 71 - ../tests/check_sider_db.c:Core:test_db_schema: Passed ok 72 - ../tests/check_sider_db.c:Abort:test_db_open_abort: Passed ok 73 - ../tests/check_sider_db.c:Abort:test_db_close_abort: Passed ok 74 - ../tests/check_sider_db.c:Abort:test_db_exec_abort: Passed ok 75 - ../tests/check_sider_db.c:Abort:test_db_prepare_abort: Passed ok 76 - ../tests/check_sider_db.c:Abort:test_db_step_abort: Passed ok 77 - ../tests/check_sider_db.c:Abort:test_db_reset_abort: Passed ok 78 - ../tests/check_sider_db.c:Abort:test_db_bind_int_abort: Passed ok 79 - ../tests/check_sider_db.c:Abort:test_db_bind_int64_abort: Passed ok 80 - ../tests/check_sider_db.c:Abort:test_db_bind_double_abort: Passed ok 81 - ../tests/check_sider_db.c:Abort:test_db_bind_text_abort: Passed ok 82 - ../tests/check_sider_db.c:Abort:test_db_column_int_abort: Passed ok 83 - ../tests/check_sider_db.c:Abort:test_db_column_int64_abort: Passed ok 84 - ../tests/check_sider_db.c:Abort:test_db_column_double_abort: Passed ok 85 - ../tests/check_sider_db.c:Abort:test_db_column_text_abort: Passed Chr ok 86 - ../tests/check_sider_chr.c:Core:test_chr_std_lookup: Passed Exon ok 87 - ../tests/check_sider_exon.c:Core:test_exon_tree_index_dump: Passed ok 88 - ../tests/check_sider_exon.c:Core:test_exon_tree_lookup_dump: Passed Abnormal ok 89 - ../tests/check_sider_abnormal.c:Core:test_abnormal_filter_sorted: Passed ok 90 - ../tests/check_sider_abnormal.c:Core:test_abnormal_filter_unsorted: Passed GFF ok 91 - ../tests/check_sider_gff.c:Core:test_gff_header: Passed ok 92 - ../tests/check_sider_gff.c:Core:test_gff_read: Passed ok 93 - ../tests/check_sider_gff.c:Core:test_gff_filter: Passed ok 94 - ../tests/check_sider_gff.c:Core:test_gff_looks_like_gff_file: Passed ok 95 - ../tests/check_sider_gff.c:Abort:test_open_fatal: Passed ok 96 - ../tests/check_sider_gff.c:Abort:test_seqname_fatal: Passed ok 97 - ../tests/check_sider_gff.c:Abort:test_source_fatal: Passed ok 98 - ../tests/check_sider_gff.c:Abort:test_feature_fatal: Passed ok 99 - ../tests/check_sider_gff.c:Abort:test_start_fatal: Passed ok 100 - ../tests/check_sider_gff.c:Abort:test_end_fatal: Passed ok 101 - ../tests/check_sider_gff.c:Abort:test_score_fatal: Passed ok 102 - ../tests/check_sider_gff.c:Abort:test_strand_fatal: Passed ok 103 - ../tests/check_sider_gff.c:Abort:test_frame_fatal: Passed ok 104 - ../tests/check_sider_gff.c:Abort:test_key_value_fatal: Passed ok 105 - ../tests/check_sider_gff.c:Abort:test_close_fatal: Passed IO ok 106 - ../tests/check_sider_io.c:Core:test_read_file_lines: Passed DBSCAN ok 107 - ../tests/check_sider_dbscan.c:Core:test_dbscan: Passed Cluster ok 108 - ../tests/check_sider_cluster.c:Core:test_cluster_without_genotype_support: Passed ok 109 - ../tests/check_sider_cluster.c:Core:test_cluster_with_genotype_support: Passed Wrapper ok 110 - ../tests/check_sider_wrapper.c:Core:test_xmalloc: Passed ok 111 - ../tests/check_sider_wrapper.c:Core:test_xcalloc: Passed ok 112 - ../tests/check_sider_wrapper.c:Core:test_xrealloc: Passed ok 113 - ../tests/check_sider_wrapper.c:Core:test_xstrdup: Passed ok 114 - ../tests/check_sider_wrapper.c:Core:test_xfree: Passed ok 115 - ../tests/check_sider_wrapper.c:Core:test_xfopen: Passed ok 116 - ../tests/check_sider_wrapper.c:Core:test_xfdopen: Passed ok 117 - ../tests/check_sider_wrapper.c:Core:test_xfclose: Passed ok 118 - ../tests/check_sider_wrapper.c:Core:test_xfflush: Passed ok 119 - ../tests/check_sider_wrapper.c:Core:test_xpopen: Passed ok 120 - ../tests/check_sider_wrapper.c:Core:test_xmkdir: Passed ok 121 - ../tests/check_sider_wrapper.c:Core:test_xasprintf: Passed ok 122 - ../tests/check_sider_wrapper.c:Core:test_xfprintf: Passed ok 123 - ../tests/check_sider_wrapper.c:Core:test_xsigaction: Passed ok 124 - ../tests/check_sider_wrapper.c:Abort:test_xfopen_rw_abort: Passed ok 125 - ../tests/check_sider_wrapper.c:Abort:test_xfopen_w_abort: Passed ok 126 - ../tests/check_sider_wrapper.c:Abort:test_xfopen_r_abort: Passed ok 127 - ../tests/check_sider_wrapper.c:Abort:test_xfdopen_rw_abort: Passed ok 128 - ../tests/check_sider_wrapper.c:Abort:test_xfdopen_w_abort: Passed ok 129 - ../tests/check_sider_wrapper.c:Abort:test_xfdopen_r_abort: Passed ok 130 - ../tests/check_sider_wrapper.c:Abort:test_xmkdir_abort: Passed ok 131 - ../tests/check_sider_wrapper.c:Abort:test_xsigaction_abort: Passed ok 132 - ../tests/check_sider_wrapper.c:Abort:test_xpopen_r_abort: Passed ok 133 - ../tests/check_sider_wrapper.c:Abort:test_xpopen_w_abort: Passed DBMerge ok 134 - ../tests/check_sider_db_merge.c:Core:test_db_merge: Passed ok 135 - ../tests/check_sider_db_merge.c:Core:test_db_merge_in_line: Passed Set ok 136 - ../tests/check_sider_set.c:Core:test_set_free: Passed ok 137 - ../tests/check_sider_set.c:Core:test_set_insert: Passed ok 138 - ../tests/check_sider_set.c:Core:test_set_remove: Passed ok 139 - ../tests/check_sider_set.c:Core:test_set_union: Passed ok 140 - ../tests/check_sider_set.c:Core:test_set_intersection: Passed ok 141 - ../tests/check_sider_set.c:Core:test_set_difference: Passed ok 142 - ../tests/check_sider_set.c:Core:test_set_is_subset: Passed ok 143 - ../tests/check_sider_set.c:Core:test_set_is_equal: Passed ok 144 - ../tests/check_sider_set.c:Core:test_set_is_member: Passed Correlation ok 145 - ../tests/check_sider_correlation.c:Core:test_pearson: Passed ok 146 - ../tests/check_sider_correlation.c:Core:test_spearman: Passed ok 147 - ../tests/check_sider_correlation.c:Core:test_spearman_eq: Passed ok 148 - ../tests/check_sider_correlation.c:Core:test_spearman_permutation_test: Passed BED ok 149 - ../tests/check_sider_bed.c:Core:test_bed_header: Passed ok 150 - ../tests/check_sider_bed.c:Core:test_beds: Passed ok 151 - ../tests/check_sider_bed.c:Core:test_beds: Passed ok 152 - ../tests/check_sider_bed.c:Core:test_beds: Passed ok 153 - ../tests/check_sider_bed.c:Core:test_beds: Passed ok 154 - ../tests/check_sider_bed.c:Core:test_beds: Passed ok 155 - ../tests/check_sider_bed.c:Core:test_beds: Passed ok 156 - ../tests/check_sider_bed.c:Core:test_beds: Passed ok 157 - ../tests/check_sider_bed.c:Core:test_beds: Passed ok 158 - ../tests/check_sider_bed.c:Core:test_beds: Passed ok 159 - ../tests/check_sider_bed.c:Core:test_beds: Passed ok 160 - ../tests/check_sider_bed.c:Abort:test_open_fatal: Passed ok 161 - ../tests/check_sider_bed.c:Abort:test_chrom_fatal: Passed ok 162 - ../tests/check_sider_bed.c:Abort:test_chrom_start_fatal: Passed ok 163 - ../tests/check_sider_bed.c:Abort:test_chrom_end_fatal: Passed ok 164 - ../tests/check_sider_bed.c:Abort:test_close_fatal: Passed Blacklist ok 165 - ../tests/check_sider_blacklist.c:Core:test_blacklist_index_dump_from_gff: Passed ok 166 - ../tests/check_sider_blacklist.c:Core:test_blacklist_index_dump_from_bed: Passed ok 167 - ../tests/check_sider_blacklist.c:Core:test_blacklist_lookup: Passed Retrocopy ok 168 - ../tests/check_sider_retrocopy.c:Core:test_retrocopy: Passed Dedup ok 169 - ../tests/check_sider_dedup.c:Core:test_dedup: Passed Genotype [E::idx_find_and_load] Could not retrieve index file for '/tmp/ponga_unsorted.bam.piTjXB' ok 170 - ../tests/check_sider_genotype.c:Core:test_genotype: Passed FASTA ok 171 - ../tests/check_sider_fasta.c:Core:test_fasta_read: Passed ok 172 - ../tests/check_sider_fasta.c:Core:test_empty_file: Passed ok 173 - ../tests/check_sider_fasta.c:Abort:test_open_fatal: Passed ok 174 - ../tests/check_sider_fasta.c:Abort:test_contig_fatal: Passed ok 175 - ../tests/check_sider_fasta.c:Abort:test_seq1_fatal: Passed ok 176 - ../tests/check_sider_fasta.c:Abort:test_seq2_fatal: Passed ok 177 - ../tests/check_sider_fasta.c:Abort:test_close_fatal: Passed VCF ok 178 - ../tests/check_sider_vcf.c:Core:test_vcf: Passed GZ ok 179 - ../tests/check_sider_gz.c:Core:test_read1: Passed ok 180 - ../tests/check_sider_gz.c:Core:test_read2: Passed ok 181 - ../tests/check_sider_gz.c:Core:test_read_long_line: Passed ok 182 - ../tests/check_sider_gz.c:Abort:test_open_fatal: Passed ok 183 - ../tests/check_sider_gz.c:Abort:test_close_fatal: Passed ok 184 - ../tests/check_sider_gz.c:Abort:test_read_fatal1: Passed ok 185 - ../tests/check_sider_gz.c:Abort:test_read_fatal2: Passed 100%: Checks: 185, Failures: 0, Errors: 0 1..185 ―――――――――――――――――――――――――――――――――――――――――――――――――――――――――――――――――――――――――――――― 1/1 all OK 0.59s Ok: 1 Fail: 0 Full log written to /build/reproducible-path/sideretro-1.1.6/obj-aarch64-linux-gnu/meson-logs/testlog.txt create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install --destdir=debian/sideretro/ cd obj-aarch64-linux-gnu && DESTDIR=/build/reproducible-path/sideretro-1.1.6/debian/sideretro LC_ALL=C.UTF-8 ninja install [1/68] Generating config.h with a custom command [1/2] Installing files Installing src/sider to /build/reproducible-path/sideretro-1.1.6/debian/sideretro/usr/bin Installing docs/sider.1 to /build/reproducible-path/sideretro-1.1.6/debian/sideretro/usr/share/man/man1 dh_installdocs dh_installchangelogs dh_installman dh_perl dh_link dh_strip_nondeterminism dh_compress dh_fixperms dh_missing dh_dwz -a dh_strip -a dh_makeshlibs -a dh_shlibdeps -a 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 dh_gencontrol dh_md5sums dh_builddeb dpkg-deb: building package 'sideretro' in '../sideretro_1.1.6-2_arm64.deb'. dpkg-deb: building package 'sideretro-dbgsym' in '../sideretro-dbgsym_1.1.6-2_arm64.deb'. dpkg-genbuildinfo --build=binary -O../sideretro_1.1.6-2_arm64.buildinfo dpkg-genchanges --build=binary -O../sideretro_1.1.6-2_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: not including original source code in upload I: copying local configuration I: user script /srv/workspace/pbuilder/2210455/tmp/hooks/B01_cleanup starting I: user script /srv/workspace/pbuilder/2210455/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/2210455 and its subdirectories I: Current time: Thu Sep 18 04:27:54 +14 2025 I: pbuilder-time-stamp: 1758119274 + false + set +x Wed Sep 17 14:27:54 UTC 2025 I: Signing ./b2/sideretro_1.1.6-2_arm64.buildinfo as sideretro_1.1.6-2_arm64.buildinfo.asc Wed Sep 17 14:27:54 UTC 2025 I: Signed ./b2/sideretro_1.1.6-2_arm64.buildinfo as ./b2/sideretro_1.1.6-2_arm64.buildinfo.asc Wed Sep 17 14:27:54 UTC 2025 - build #2 for sideretro/forky/arm64 on codethink04-arm64 done. Starting cleanup. All cleanup done. Wed Sep 17 14:27:54 UTC 2025 - reproducible_build.sh stopped running as /tmp/jenkins-script-DvFnlxEu, removing. /srv/reproducible-results/rbuild-debian/r-b-build.g8Ofgp54: total 140 drwxrwxr-x 2 jenkins jenkins 4096 Sep 17 14:26 b1 drwxrwxr-x 2 jenkins jenkins 4096 Sep 17 14:27 b2 -rw------- 1 jenkins jenkins 126529 Sep 17 14:26 rbuildlog.5iR7yPO -rw-rw-r-- 1 jenkins jenkins 2057 Mar 17 2025 sideretro_1.1.6-2.dsc /srv/reproducible-results/rbuild-debian/r-b-build.g8Ofgp54/b1: total 444 -rw-r--r-- 1 jenkins jenkins 123054 Sep 17 14:26 build.log -rw-r--r-- 1 jenkins jenkins 168844 Sep 17 14:26 sideretro-dbgsym_1.1.6-2_arm64.deb -rw-r--r-- 1 jenkins jenkins 7404 Sep 17 14:26 sideretro_1.1.6-2.debian.tar.xz -rw-r--r-- 1 jenkins jenkins 2057 Sep 17 14:26 sideretro_1.1.6-2.dsc -rw-r--r-- 1 jenkins jenkins 9027 Sep 17 14:26 sideretro_1.1.6-2_arm64.buildinfo -rw-rw-r-- 1 jenkins jenkins 9909 Sep 17 14:26 sideretro_1.1.6-2_arm64.buildinfo.asc -rw-r--r-- 1 jenkins jenkins 1390 Sep 17 14:26 sideretro_1.1.6-2_arm64.changes -rw-r--r-- 1 jenkins jenkins 95264 Sep 17 14:26 sideretro_1.1.6-2_arm64.deb -rw-r--r-- 1 jenkins jenkins 1231 Sep 17 14:26 sideretro_1.1.6-2_source.changes /srv/reproducible-results/rbuild-debian/r-b-build.g8Ofgp54/b2: total 432 -rw-rw-r-- 1 jenkins jenkins 124996 Sep 17 14:27 build.log -rw-r--r-- 1 jenkins jenkins 168844 Sep 17 14:27 sideretro-dbgsym_1.1.6-2_arm64.deb -rw-r--r-- 1 jenkins jenkins 7404 Sep 17 14:27 sideretro_1.1.6-2.debian.tar.xz -rw-r--r-- 1 jenkins jenkins 2057 Sep 17 14:27 sideretro_1.1.6-2.dsc -rw-rw-r-- 1 jenkins jenkins 9027 Sep 17 14:27 sideretro_1.1.6-2_arm64.buildinfo -rw-rw-r-- 1 jenkins jenkins 9909 Sep 17 14:27 sideretro_1.1.6-2_arm64.buildinfo.asc -rw-rw-r-- 1 jenkins jenkins 1390 Sep 17 14:27 sideretro_1.1.6-2_arm64.changes -rw-r--r-- 1 jenkins jenkins 95264 Sep 17 14:27 sideretro_1.1.6-2_arm64.deb -rw-rw-r-- 1 jenkins jenkins 1231 Sep 17 14:27 sideretro_1.1.6-2_source.changes Wed Sep 17 14:27:55 UTC 2025 I: Deleting $TMPDIR on codethink04-arm64.debian.net. Wed Sep 17 14:27:56 UTC 2025 I: sideretro_1.1.6-2_arm64.changes: Format: 1.8 Date: Mon, 17 Mar 2025 14:43:40 -0300 Source: sideretro Binary: sideretro sideretro-dbgsym Architecture: arm64 Version: 1.1.6-2 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Daniela Moreira Mombach Description: sideretro - pipeline for detecting Somatic Insertion of DE novo RETROcopies Changes: sideretro (1.1.6-2) unstable; urgency=medium . * Source-only upload to allow testing migration. Checksums-Sha1: 4cfe957805550229fb2a317f057f98f7360346ac 168844 sideretro-dbgsym_1.1.6-2_arm64.deb b96e498feb0f7dcc78b65c3275c2b4ce74a1b54e 9027 sideretro_1.1.6-2_arm64.buildinfo 9105d360dbb40814a34ac0bfb1f06e74fd3f5e83 95264 sideretro_1.1.6-2_arm64.deb Checksums-Sha256: e06ecfa5dedb426544a87dd8555dd91d9c0a7c84596af70fe00b8dbebe59bdaa 168844 sideretro-dbgsym_1.1.6-2_arm64.deb f7776799cea9b1ea84682574ebbc81888cd3dda4596b7b348e5db5cee3964883 9027 sideretro_1.1.6-2_arm64.buildinfo ae8c4ca3dff75f8bc71ba132d946594ea0aa9ef7382d96562503817967e3d49c 95264 sideretro_1.1.6-2_arm64.deb Files: 3f63ec08592b712691908d16f9fc81e2 168844 debug optional sideretro-dbgsym_1.1.6-2_arm64.deb 4b17f005db35fdcc946bb49bf51af322 9027 science optional sideretro_1.1.6-2_arm64.buildinfo 613aab927d5c034aef0e47b0e176e3f5 95264 science optional sideretro_1.1.6-2_arm64.deb removed '/var/lib/jenkins/userContent/reproducible/debian/buildinfo/forky/arm64/sideretro_1.1.6-2_arm64.buildinfo' removed '/var/lib/jenkins/userContent/reproducible/debian/logdiffs/forky/arm64/sideretro_1.1.6-2.diff.gz' Diff of the two buildlogs: -- --- b1/build.log 2025-09-17 14:26:40.650928969 +0000 +++ b2/build.log 2025-09-17 14:27:55.559017684 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Tue Oct 20 08:48:52 -12 2026 -I: pbuilder-time-stamp: 1792529332 +I: Current time: Thu Sep 18 04:26:42 +14 2025 +I: pbuilder-time-stamp: 1758119202 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/forky-reproducible-base.tgz] I: copying local configuration @@ -22,53 +22,85 @@ dpkg-source: info: unpacking sideretro_1.1.6-2.debian.tar.xz I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/889074/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/2210455/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 Sep 17 14:26 /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/2210455/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/2210455/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='bfb530b2bf3f4db0bf06f6af5639e3c9' - 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='889074' - PS1='# ' - PS2='> ' + INVOCATION_ID=1ef62f4928504c54bcf23d7750ab3919 + 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=2210455 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.g8Ofgp54/pbuilderrc_7AdG --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.g8Ofgp54/b1 --logfile b1/build.log sideretro_1.1.6-2.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.g8Ofgp54/pbuilderrc_A5Er --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.g8Ofgp54/b2 --logfile b2/build.log sideretro_1.1.6-2.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 6.12.43+deb13-cloud-arm64 #1 SMP Debian 6.12.43-1 (2025-08-27) aarch64 GNU/Linux + Linux i-capture-the-hostname 6.12.43+deb13-cloud-arm64 #1 SMP Debian 6.12.43-1 (2025-08-27) aarch64 GNU/Linux I: ls -l /bin - lrwxrwxrwx 1 root root 7 Aug 10 2025 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/889074/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 Aug 10 12:30 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/2210455/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -280,7 +312,7 @@ Get: 158 http://deb.debian.org/debian forky/main arm64 python3-snowballstemmer all 3.0.1-1 [63.5 kB] Get: 159 http://deb.debian.org/debian forky/main arm64 sphinx-common all 8.2.3-6 [619 kB] Get: 160 http://deb.debian.org/debian forky/main arm64 python3-sphinx all 8.2.3-6 [477 kB] -Fetched 65.6 MB in 0s (262 MB/s) +Fetched 65.6 MB in 0s (192 MB/s) Preconfiguring packages ... Selecting previously unselected package libexpat1:arm64. (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 ... 20020 files and directories currently installed.) @@ -802,8 +834,8 @@ Setting up tzdata (2025b-5) ... Current default time zone: 'Etc/UTC' -Local time is now: Tue Oct 20 20:49:19 UTC 2026. -Universal Time is now: Tue Oct 20 20:49:19 UTC 2026. +Local time is now: Wed Sep 17 14:27:20 UTC 2025. +Universal Time is now: Wed Sep 17 14:27:20 UTC 2025. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up autotools-dev (20240727.1) ... @@ -957,7 +989,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/sideretro-1.1.6/ && 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 > ../sideretro_1.1.6-2_source.changes +I: user script /srv/workspace/pbuilder/2210455/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for forky +I: user script /srv/workspace/pbuilder/2210455/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/sideretro-1.1.6/ && 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 > ../sideretro_1.1.6-2_source.changes dpkg-buildpackage: info: source package sideretro dpkg-buildpackage: info: source version 1.1.6-2 dpkg-buildpackage: info: source distribution unstable @@ -1012,68 +1048,81 @@ dh_auto_build cd obj-aarch64-linux-gnu && LC_ALL=C.UTF-8 ninja -j12 -v [1/70] /usr/bin/meson --internal vcstagger config.h.in config.h 1.1.6 /build/reproducible-path/sideretro-1.1.6 @version@ '(.*)' git describe --tags --dirty=+ -[2/70] cc -Isrc/libsider.a.p -Isrc -I../src -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -MD -MQ src/libsider.a.p/chr.c.o -MF src/libsider.a.p/chr.c.o.d -o src/libsider.a.p/chr.c.o -c ../src/chr.c -[3/70] cc -Isrc/libsider.a.p -Isrc -I../src -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -MD -MQ src/libsider.a.p/bitree.c.o -MF src/libsider.a.p/bitree.c.o.d -o src/libsider.a.p/bitree.c.o -c ../src/bitree.c -[4/70] cc -Isrc/libsider.a.p -Isrc -I../src -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -MD -MQ src/libsider.a.p/db_merge.c.o -MF src/libsider.a.p/db_merge.c.o.d -o src/libsider.a.p/db_merge.c.o -c ../src/db_merge.c -[5/70] cc -Isrc/libsider.a.p -Isrc -I../src -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -MD -MQ src/libsider.a.p/dbscan.c.o -MF src/libsider.a.p/dbscan.c.o.d -o src/libsider.a.p/dbscan.c.o -c ../src/dbscan.c -[6/70] cc -Isrc/libsider.a.p -Isrc -I../src -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -MD -MQ src/libsider.a.p/bed.c.o -MF src/libsider.a.p/bed.c.o.d -o src/libsider.a.p/bed.c.o -c ../src/bed.c -[7/70] cc -Isrc/libsider.a.p -Isrc -I../src -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -MD -MQ src/libsider.a.p/array.c.o -MF src/libsider.a.p/array.c.o.d -o src/libsider.a.p/array.c.o -c ../src/array.c -[8/70] cc -Isrc/libsider.a.p -Isrc -I../src -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -MD -MQ src/libsider.a.p/blacklist.c.o -MF src/libsider.a.p/blacklist.c.o.d -o src/libsider.a.p/blacklist.c.o -c ../src/blacklist.c -[9/70] cc -Isrc/libsider.a.p -Isrc -I../src -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -MD -MQ src/libsider.a.p/dedup.c.o -MF src/libsider.a.p/dedup.c.o.d -o src/libsider.a.p/dedup.c.o -c ../src/dedup.c -[10/70] cc -Isrc/libsider.a.p -Isrc -I../src -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -MD -MQ src/libsider.a.p/correlation.c.o -MF src/libsider.a.p/correlation.c.o.d -o src/libsider.a.p/correlation.c.o -c ../src/correlation.c -[11/70] cc -Isrc/libsider.a.p -Isrc -I../src -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -MD -MQ src/libsider.a.p/exon.c.o -MF src/libsider.a.p/exon.c.o.d -o src/libsider.a.p/exon.c.o -c ../src/exon.c -[12/70] cc -Isrc/libsider.a.p -Isrc -I../src -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -MD -MQ src/libsider.a.p/fasta.c.o -MF src/libsider.a.p/fasta.c.o.d -o src/libsider.a.p/fasta.c.o -c ../src/fasta.c -[13/70] cc -Isrc/libsider.a.p -Isrc -I../src -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard 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-Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -MD -MQ src/libsider.a.p/process_sample.c.o -MF src/libsider.a.p/process_sample.c.o.d -o src/libsider.a.p/process_sample.c.o -c ../src/process_sample.c -[25/70] cc -Isrc/libsider.a.p -Isrc -I../src -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -MD -MQ src/libsider.a.p/hash.c.o -MF src/libsider.a.p/hash.c.o.d -o src/libsider.a.p/hash.c.o -c ../src/hash.c -[26/70] cc -Isrc/libsider.a.p -Isrc -I../src -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -MD -MQ src/libsider.a.p/str.c.o -MF src/libsider.a.p/str.c.o.d -o src/libsider.a.p/str.c.o -c ../src/str.c +[25/70] cc -Isrc/libsider.a.p -Isrc -I../src -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -MD -MQ src/libsider.a.p/genotype.c.o -MF src/libsider.a.p/genotype.c.o.d -o src/libsider.a.p/genotype.c.o -c ../src/genotype.c +[26/70] cc -Isrc/libsider.a.p -Isrc -I../src -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -MD -MQ src/libsider.a.p/db.c.o -MF src/libsider.a.p/db.c.o.d -o src/libsider.a.p/db.c.o -c ../src/db.c [27/70] cc -Isrc/libsider.a.p -Isrc -I../src -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -MD -MQ src/libsider.a.p/sam.c.o -MF src/libsider.a.p/sam.c.o.d -o src/libsider.a.p/sam.c.o -c ../src/sam.c -[28/70] cc -Isrc/sider.p -Isrc -I../src -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MQ src/sider.p/main.c.o -MF src/sider.p/main.c.o.d -o src/sider.p/main.c.o -c ../src/main.c -[29/70] cc -Isrc/libsider.a.p -Isrc -I../src -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -MD -MQ src/libsider.a.p/genotype.c.o -MF src/libsider.a.p/genotype.c.o.d -o src/libsider.a.p/genotype.c.o -c ../src/genotype.c +[28/70] cc -Isrc/libsider.a.p -Isrc -I../src -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -MD -MQ src/libsider.a.p/str.c.o -MF src/libsider.a.p/str.c.o.d -o src/libsider.a.p/str.c.o -c ../src/str.c +[29/70] cc -Isrc/libsider.a.p -Isrc -I../src -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -MD -MQ src/libsider.a.p/hash.c.o -MF src/libsider.a.p/hash.c.o.d -o src/libsider.a.p/hash.c.o -c ../src/hash.c [30/70] cc -Isrc/libsider.a.p -Isrc -I../src -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -MD -MQ src/libsider.a.p/set.c.o -MF src/libsider.a.p/set.c.o.d -o src/libsider.a.p/set.c.o -c ../src/set.c -[31/70] cc -Isrc/libsider.a.p -Isrc -I../src -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -MD -MQ src/libsider.a.p/retrocopy.c.o -MF src/libsider.a.p/retrocopy.c.o.d -o src/libsider.a.p/retrocopy.c.o -c ../src/retrocopy.c -[32/70] cc -Isrc/libsider.a.p -Isrc -I../src -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -MD -MQ src/libsider.a.p/wrapper.c.o -MF src/libsider.a.p/wrapper.c.o.d -o src/libsider.a.p/wrapper.c.o -c ../src/wrapper.c -[33/70] cc -Isrc/libsider.a.p -Isrc -I../src -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -MD -MQ src/libsider.a.p/thpool.c.o -MF src/libsider.a.p/thpool.c.o.d -o src/libsider.a.p/thpool.c.o -c ../src/thpool.c -[34/70] cc -Isrc/libsider.a.p -Isrc -I../src -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -MD -MQ src/libsider.a.p/merge_call.c.o -MF src/libsider.a.p/merge_call.c.o.d -o src/libsider.a.p/merge_call.c.o -c ../src/merge_call.c -[35/70] cc -Isrc/libsider.a.p -Isrc -I../src -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -MD -MQ src/libsider.a.p/utils.c.o -MF src/libsider.a.p/utils.c.o.d -o src/libsider.a.p/utils.c.o -c ../src/utils.c -[36/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_bed.c.o -MF tests/check_sider.p/check_sider_bed.c.o.d -o tests/check_sider.p/check_sider_bed.c.o -c ../tests/check_sider_bed.c -[37/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_bitree.c.o -MF tests/check_sider.p/check_sider_bitree.c.o.d -o tests/check_sider.p/check_sider_bitree.c.o -c ../tests/check_sider_bitree.c -[38/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_chr.c.o -MF tests/check_sider.p/check_sider_chr.c.o.d -o tests/check_sider.p/check_sider_chr.c.o -c ../tests/check_sider_chr.c -[39/70] cc -Isrc/libsider.a.p -Isrc -I../src -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -MD -MQ src/libsider.a.p/vcf.c.o -MF src/libsider.a.p/vcf.c.o.d -o src/libsider.a.p/vcf.c.o -c ../src/vcf.c -[40/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_blacklist.c.o -MF tests/check_sider.p/check_sider_blacklist.c.o.d -o tests/check_sider.p/check_sider_blacklist.c.o -c ../tests/check_sider_blacklist.c -[41/70] rm -f src/libsider.a && gcc-ar csrDT src/libsider.a src/libsider.a.p/abnormal.c.o src/libsider.a.p/array.c.o src/libsider.a.p/bed.c.o src/libsider.a.p/bitree.c.o src/libsider.a.p/blacklist.c.o src/libsider.a.p/chr.c.o src/libsider.a.p/cluster.c.o src/libsider.a.p/correlation.c.o src/libsider.a.p/db.c.o src/libsider.a.p/db_merge.c.o src/libsider.a.p/dbscan.c.o src/libsider.a.p/dedup.c.o src/libsider.a.p/exon.c.o src/libsider.a.p/fasta.c.o src/libsider.a.p/genotype.c.o src/libsider.a.p/gff.c.o src/libsider.a.p/gz.c.o src/libsider.a.p/hash.c.o src/libsider.a.p/ibitree.c.o src/libsider.a.p/io.c.o src/libsider.a.p/list.c.o src/libsider.a.p/log.c.o src/libsider.a.p/logger.c.o src/libsider.a.p/make_vcf.c.o src/libsider.a.p/merge_call.c.o src/libsider.a.p/process_sample.c.o src/libsider.a.p/retrocopy.c.o src/libsider.a.p/sam.c.o src/libsider.a.p/set.c.o src/libsider.a.p/str.c.o src/libsider.a.p/thpool.c.o src/libsider.a.p/utils.c.o src/libsider.a.p/vcf.c.o src/libsider.a.p/wrapper.c.o -[42/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_correlation.c.o -MF tests/check_sider.p/check_sider_correlation.c.o.d -o tests/check_sider.p/check_sider_correlation.c.o -c ../tests/check_sider_correlation.c -[43/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_dedup.c.o -MF tests/check_sider.p/check_sider_dedup.c.o.d -o tests/check_sider.p/check_sider_dedup.c.o -c ../tests/check_sider_dedup.c -[44/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_abnormal.c.o -MF tests/check_sider.p/check_sider_abnormal.c.o.d -o tests/check_sider.p/check_sider_abnormal.c.o -c ../tests/check_sider_abnormal.c -[45/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_db_merge.c.o -MF tests/check_sider.p/check_sider_db_merge.c.o.d -o tests/check_sider.p/check_sider_db_merge.c.o -c ../tests/check_sider_db_merge.c -[46/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_cluster.c.o -MF tests/check_sider.p/check_sider_cluster.c.o.d -o tests/check_sider.p/check_sider_cluster.c.o -c ../tests/check_sider_cluster.c -[47/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_dbscan.c.o -MF tests/check_sider.p/check_sider_dbscan.c.o.d -o tests/check_sider.p/check_sider_dbscan.c.o -c ../tests/check_sider_dbscan.c -[48/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_array.c.o -MF tests/check_sider.p/check_sider_array.c.o.d -o 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-D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_fasta.c.o -MF tests/check_sider.p/check_sider_fasta.c.o.d -o tests/check_sider.p/check_sider_fasta.c.o -c ../tests/check_sider_fasta.c -[53/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_io.c.o -MF 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-Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_gff.c.o -MF tests/check_sider.p/check_sider_gff.c.o.d -o tests/check_sider.p/check_sider_gff.c.o -c ../tests/check_sider_gff.c -[58/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_ibitree.c.o -MF tests/check_sider.p/check_sider_ibitree.c.o.d -o tests/check_sider.p/check_sider_ibitree.c.o -c ../tests/check_sider_ibitree.c -[59/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_list.c.o -MF tests/check_sider.p/check_sider_list.c.o.d -o tests/check_sider.p/check_sider_list.c.o -c ../tests/check_sider_list.c -[60/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration 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../tests/check_sider_sam.c -[62/70] cc -o src/sider src/sider.p/main.c.o -Wl,--as-needed -Wl,--no-undefined -Wl,-z,relro -Wl,-z,now -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,--start-group src/libsider.a -pthread /usr/lib/aarch64-linux-gnu/libsqlite3.so /usr/lib/aarch64-linux-gnu/libhts.so /usr/lib/aarch64-linux-gnu/libz.so -lm -ldl -Wl,--end-group -[63/70] /usr/bin/sphinx-build -b man /build/reproducible-path/sideretro-1.1.6/docs /build/reproducible-path/sideretro-1.1.6/obj-aarch64-linux-gnu/docs +[31/70] cc -Isrc/sider.p -Isrc -I../src -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MQ src/sider.p/main.c.o -MF src/sider.p/main.c.o.d -o src/sider.p/main.c.o -c ../src/main.c +[32/70] cc -Isrc/libsider.a.p -Isrc -I../src -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -MD -MQ src/libsider.a.p/utils.c.o -MF src/libsider.a.p/utils.c.o.d -o src/libsider.a.p/utils.c.o -c ../src/utils.c +[33/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_chr.c.o -MF tests/check_sider.p/check_sider_chr.c.o.d -o tests/check_sider.p/check_sider_chr.c.o -c ../tests/check_sider_chr.c +[34/70] cc -Isrc/libsider.a.p -Isrc -I../src -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -MD -MQ src/libsider.a.p/wrapper.c.o -MF src/libsider.a.p/wrapper.c.o.d -o src/libsider.a.p/wrapper.c.o -c ../src/wrapper.c +[35/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_bitree.c.o -MF tests/check_sider.p/check_sider_bitree.c.o.d -o tests/check_sider.p/check_sider_bitree.c.o -c ../tests/check_sider_bitree.c +[36/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_abnormal.c.o -MF tests/check_sider.p/check_sider_abnormal.c.o.d -o tests/check_sider.p/check_sider_abnormal.c.o -c ../tests/check_sider_abnormal.c +[37/70] cc -Isrc/libsider.a.p -Isrc -I../src -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -MD -MQ src/libsider.a.p/merge_call.c.o -MF src/libsider.a.p/merge_call.c.o.d -o src/libsider.a.p/merge_call.c.o -c ../src/merge_call.c +[38/70] cc -Isrc/libsider.a.p -Isrc -I../src -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -MD -MQ src/libsider.a.p/retrocopy.c.o -MF src/libsider.a.p/retrocopy.c.o.d -o src/libsider.a.p/retrocopy.c.o -c ../src/retrocopy.c +[39/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_correlation.c.o -MF tests/check_sider.p/check_sider_correlation.c.o.d -o tests/check_sider.p/check_sider_correlation.c.o -c ../tests/check_sider_correlation.c +[40/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_bed.c.o -MF tests/check_sider.p/check_sider_bed.c.o.d -o tests/check_sider.p/check_sider_bed.c.o -c ../tests/check_sider_bed.c +[41/70] cc -Isrc/libsider.a.p -Isrc -I../src -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -MD -MQ src/libsider.a.p/vcf.c.o -MF src/libsider.a.p/vcf.c.o.d -o src/libsider.a.p/vcf.c.o -c ../src/vcf.c +[42/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_blacklist.c.o -MF tests/check_sider.p/check_sider_blacklist.c.o.d -o tests/check_sider.p/check_sider_blacklist.c.o -c ../tests/check_sider_blacklist.c +[43/70] rm -f src/libsider.a && gcc-ar csrDT src/libsider.a src/libsider.a.p/abnormal.c.o src/libsider.a.p/array.c.o src/libsider.a.p/bed.c.o src/libsider.a.p/bitree.c.o src/libsider.a.p/blacklist.c.o src/libsider.a.p/chr.c.o src/libsider.a.p/cluster.c.o src/libsider.a.p/correlation.c.o src/libsider.a.p/db.c.o src/libsider.a.p/db_merge.c.o src/libsider.a.p/dbscan.c.o src/libsider.a.p/dedup.c.o src/libsider.a.p/exon.c.o src/libsider.a.p/fasta.c.o src/libsider.a.p/genotype.c.o src/libsider.a.p/gff.c.o src/libsider.a.p/gz.c.o src/libsider.a.p/hash.c.o src/libsider.a.p/ibitree.c.o src/libsider.a.p/io.c.o src/libsider.a.p/list.c.o src/libsider.a.p/log.c.o src/libsider.a.p/logger.c.o src/libsider.a.p/make_vcf.c.o src/libsider.a.p/merge_call.c.o src/libsider.a.p/process_sample.c.o src/libsider.a.p/retrocopy.c.o src/libsider.a.p/sam.c.o src/libsider.a.p/set.c.o src/libsider.a.p/str.c.o src/libsider.a.p/thpool.c.o src/libsider.a.p/utils.c.o src/libsider.a.p/vcf.c.o src/libsider.a.p/wrapper.c.o +[44/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_array.c.o -MF tests/check_sider.p/check_sider_array.c.o.d -o tests/check_sider.p/check_sider_array.c.o -c ../tests/check_sider_array.c +[45/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_cluster.c.o -MF tests/check_sider.p/check_sider_cluster.c.o.d -o tests/check_sider.p/check_sider_cluster.c.o -c ../tests/check_sider_cluster.c +[46/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_dbscan.c.o -MF tests/check_sider.p/check_sider_dbscan.c.o.d -o tests/check_sider.p/check_sider_dbscan.c.o -c ../tests/check_sider_dbscan.c +[47/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_fasta.c.o -MF tests/check_sider.p/check_sider_fasta.c.o.d -o tests/check_sider.p/check_sider_fasta.c.o -c ../tests/check_sider_fasta.c +[48/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_exon.c.o -MF tests/check_sider.p/check_sider_exon.c.o.d -o tests/check_sider.p/check_sider_exon.c.o -c ../tests/check_sider_exon.c +[49/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_db_merge.c.o -MF tests/check_sider.p/check_sider_db_merge.c.o.d -o tests/check_sider.p/check_sider_db_merge.c.o -c ../tests/check_sider_db_merge.c +[50/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_dedup.c.o -MF tests/check_sider.p/check_sider_dedup.c.o.d -o tests/check_sider.p/check_sider_dedup.c.o -c ../tests/check_sider_dedup.c +[51/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_db.c.o -MF tests/check_sider.p/check_sider_db.c.o.d -o tests/check_sider.p/check_sider_db.c.o -c ../tests/check_sider_db.c +[52/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_io.c.o -MF tests/check_sider.p/check_sider_io.c.o.d -o tests/check_sider.p/check_sider_io.c.o -c ../tests/check_sider_io.c +[53/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_gz.c.o -MF tests/check_sider.p/check_sider_gz.c.o.d -o tests/check_sider.p/check_sider_gz.c.o -c ../tests/check_sider_gz.c +[54/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_process_sample.c.o -MF tests/check_sider.p/check_sider_process_sample.c.o.d -o tests/check_sider.p/check_sider_process_sample.c.o -c ../tests/check_sider_process_sample.c +[55/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_genotype.c.o -MF tests/check_sider.p/check_sider_genotype.c.o.d -o tests/check_sider.p/check_sider_genotype.c.o -c ../tests/check_sider_genotype.c +[56/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_retrocopy.c.o -MF tests/check_sider.p/check_sider_retrocopy.c.o.d -o tests/check_sider.p/check_sider_retrocopy.c.o -c ../tests/check_sider_retrocopy.c +[57/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_ibitree.c.o -MF tests/check_sider.p/check_sider_ibitree.c.o.d -o tests/check_sider.p/check_sider_ibitree.c.o -c ../tests/check_sider_ibitree.c +[58/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_main.c.o -MF tests/check_sider.p/check_sider_main.c.o.d -o tests/check_sider.p/check_sider_main.c.o -c ../tests/check_sider_main.c +[59/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_gff.c.o -MF tests/check_sider.p/check_sider_gff.c.o.d -o tests/check_sider.p/check_sider_gff.c.o -c ../tests/check_sider_gff.c +[60/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_list.c.o -MF tests/check_sider.p/check_sider_list.c.o.d -o tests/check_sider.p/check_sider_list.c.o -c ../tests/check_sider_list.c +[61/70] cc -o src/sider src/sider.p/main.c.o -Wl,--as-needed -Wl,--no-undefined -Wl,-z,relro -Wl,-z,now -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,--start-group src/libsider.a -pthread /usr/lib/aarch64-linux-gnu/libsqlite3.so /usr/lib/aarch64-linux-gnu/libhts.so /usr/lib/aarch64-linux-gnu/libz.so -lm -ldl -Wl,--end-group +[62/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_hash.c.o -MF tests/check_sider.p/check_sider_hash.c.o.d -o tests/check_sider.p/check_sider_hash.c.o -c ../tests/check_sider_hash.c +[63/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_set.c.o -MF tests/check_sider.p/check_sider_set.c.o.d -o tests/check_sider.p/check_sider_set.c.o -c ../tests/check_sider_set.c +[64/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_vcf.c.o -MF tests/check_sider.p/check_sider_vcf.c.o.d -o tests/check_sider.p/check_sider_vcf.c.o -c ../tests/check_sider_vcf.c +[65/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_sam.c.o -MF tests/check_sider.p/check_sider_sam.c.o.d -o tests/check_sider.p/check_sider_sam.c.o -c ../tests/check_sider_sam.c +[66/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_str.c.o -MF tests/check_sider.p/check_sider_str.c.o.d -o tests/check_sider.p/check_sider_str.c.o -c ../tests/check_sider_str.c +[67/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_wrapper.c.o -MF tests/check_sider.p/check_sider_wrapper.c.o.d -o tests/check_sider.p/check_sider_wrapper.c.o -c ../tests/check_sider_wrapper.c +../tests/check_sider_wrapper.c: In function ‘test_xfprintf_fn’: +../tests/check_sider_wrapper.c:281:9: warning: ignoring return value of ‘fread’ declared with attribute ‘warn_unused_result’ [-Wunused-result] + 281 | fread (buf, sizeof (char), str_size, fp); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +../tests/check_sider_wrapper.c: In function ‘test_xfflush_fn’: +../tests/check_sider_wrapper.c:180:9: warning: ignoring return value of ‘fread’ declared with attribute ‘warn_unused_result’ [-Wunused-result] + 180 | fread (buf, sizeof (char), str_size, fp); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +[68/70] /usr/bin/sphinx-build -b man /build/reproducible-path/sideretro-1.1.6/docs /build/reproducible-path/sideretro-1.1.6/obj-aarch64-linux-gnu/docs Running Sphinx v8.2.3 WARNING: Invalid configuration value found: 'language = None'. Update your configuration to a valid language code. Falling back to 'en' (English). loading translations [en]... done @@ -1103,19 +1152,6 @@ build succeeded, 2 warnings. The manual pages are in docs. -[64/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_vcf.c.o -MF tests/check_sider.p/check_sider_vcf.c.o.d -o tests/check_sider.p/check_sider_vcf.c.o -c ../tests/check_sider_vcf.c -[65/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_str.c.o -MF tests/check_sider.p/check_sider_str.c.o.d -o tests/check_sider.p/check_sider_str.c.o -c ../tests/check_sider_str.c -[66/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_set.c.o -MF tests/check_sider.p/check_sider_set.c.o.d -o tests/check_sider.p/check_sider_set.c.o -c ../tests/check_sider_set.c -[67/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_wrapper.c.o -MF tests/check_sider.p/check_sider_wrapper.c.o.d -o tests/check_sider.p/check_sider_wrapper.c.o -c ../tests/check_sider_wrapper.c -../tests/check_sider_wrapper.c: In function ‘test_xfprintf_fn’: -../tests/check_sider_wrapper.c:281:9: warning: ignoring return value of ‘fread’ declared with attribute ‘warn_unused_result’ [-Wunused-result] - 281 | fread (buf, sizeof (char), str_size, fp); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -../tests/check_sider_wrapper.c: In function ‘test_xfflush_fn’: -../tests/check_sider_wrapper.c:180:9: warning: ignoring return value of ‘fread’ declared with attribute ‘warn_unused_result’ [-Wunused-result] - 180 | fread (buf, sizeof (char), str_size, fp); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -[68/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_hash.c.o -MF tests/check_sider.p/check_sider_hash.c.o.d -o tests/check_sider.p/check_sider_hash.c.o -c ../tests/check_sider_hash.c [69/70] cc -Itests/check_sider.p -Itests -I../tests -I. -I.. -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -DHAVE_CONFIG_H -D_GNU_SOURCE -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -MD -MQ tests/check_sider.p/check_sider_utils.c.o -MF tests/check_sider.p/check_sider_utils.c.o.d -o tests/check_sider.p/check_sider_utils.c.o -c ../tests/check_sider_utils.c [70/70] cc -o tests/check_sider tests/check_sider.p/check_sider_abnormal.c.o tests/check_sider.p/check_sider_array.c.o tests/check_sider.p/check_sider_bed.c.o tests/check_sider.p/check_sider_bitree.c.o tests/check_sider.p/check_sider_blacklist.c.o tests/check_sider.p/check_sider_chr.c.o tests/check_sider.p/check_sider_cluster.c.o tests/check_sider.p/check_sider_correlation.c.o tests/check_sider.p/check_sider_db.c.o tests/check_sider.p/check_sider_db_merge.c.o tests/check_sider.p/check_sider_dbscan.c.o tests/check_sider.p/check_sider_dedup.c.o tests/check_sider.p/check_sider_exon.c.o tests/check_sider.p/check_sider_fasta.c.o tests/check_sider.p/check_sider_genotype.c.o tests/check_sider.p/check_sider_gff.c.o tests/check_sider.p/check_sider_gz.c.o tests/check_sider.p/check_sider_hash.c.o tests/check_sider.p/check_sider_ibitree.c.o tests/check_sider.p/check_sider_io.c.o tests/check_sider.p/check_sider_list.c.o tests/check_sider.p/check_sider_main.c.o tests/check_sider.p/check_sider_process_sample.c.o tests/check_sider.p/check_sider_retrocopy.c.o tests/check_sider.p/check_sider_sam.c.o tests/check_sider.p/check_sider_set.c.o tests/check_sider.p/check_sider_str.c.o tests/check_sider.p/check_sider_utils.c.o tests/check_sider.p/check_sider_vcf.c.o tests/check_sider.p/check_sider_wrapper.c.o -Wl,--as-needed -Wl,--no-undefined -Wl,-z,relro -Wl,-z,now -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sideretro-1.1.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,--start-group src/libsider.a -pthread /usr/lib/aarch64-linux-gnu/libsqlite3.so /usr/lib/aarch64-linux-gnu/libhts.so /usr/lib/aarch64-linux-gnu/libz.so -lm -ldl /usr/lib/aarch64-linux-gnu/libcheck_pic.a -lrt /usr/lib/aarch64-linux-gnu/libsubunit.so -Wl,--end-group dh_auto_test @@ -1123,7 +1159,7 @@ ninja: Entering directory `/build/reproducible-path/sideretro-1.1.6/obj-aarch64-linux-gnu' [1/65] Generating config.h with a custom command 1/1 all RUNNING ->>> ASAN_OPTIONS=halt_on_error=1:abort_on_error=1:print_summary=1 MALLOC_PERTURB_=169 UBSAN_OPTIONS=halt_on_error=1:abort_on_error=1:print_summary=1:print_stacktrace=1 MSAN_OPTIONS=halt_on_error=1:abort_on_error=1:print_summary=1:print_stacktrace=1 MESON_TEST_ITERATION=1 /build/reproducible-path/sideretro-1.1.6/obj-aarch64-linux-gnu/tests/check_sider +>>> ASAN_OPTIONS=halt_on_error=1:abort_on_error=1:print_summary=1 MESON_TEST_ITERATION=1 MALLOC_PERTURB_=119 UBSAN_OPTIONS=halt_on_error=1:abort_on_error=1:print_summary=1:print_stacktrace=1 MSAN_OPTIONS=halt_on_error=1:abort_on_error=1:print_summary=1:print_stacktrace=1 /build/reproducible-path/sideretro-1.1.6/obj-aarch64-linux-gnu/tests/check_sider ――――――――――――――――――――――――――――――――――――― ✀ ――――――――――――――――――――――――――――――――――――― Running suite(s): ProcessSample ok 1 - ../tests/check_sider_process_sample.c:Core:test_sider: Passed @@ -1320,7 +1356,7 @@ Dedup ok 169 - ../tests/check_sider_dedup.c:Core:test_dedup: Passed Genotype -[E::idx_find_and_load] Could not retrieve index file for '/tmp/ponga_unsorted.bam.ogkRwy' +[E::idx_find_and_load] Could not retrieve index file for '/tmp/ponga_unsorted.bam.piTjXB' ok 170 - ../tests/check_sider_genotype.c:Core:test_genotype: Passed FASTA ok 171 - ../tests/check_sider_fasta.c:Core:test_fasta_read: Passed @@ -1343,7 +1379,7 @@ 100%: Checks: 185, Failures: 0, Errors: 0 1..185 ―――――――――――――――――――――――――――――――――――――――――――――――――――――――――――――――――――――――――――――― -1/1 all OK 0.49s +1/1 all OK 0.59s Ok: 1 @@ -1388,12 +1424,14 @@ dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration +I: user script /srv/workspace/pbuilder/2210455/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/2210455/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/889074 and its subdirectories -I: Current time: Tue Oct 20 08:49:39 -12 2026 -I: pbuilder-time-stamp: 1792529379 +I: removing directory /srv/workspace/pbuilder/2210455 and its subdirectories +I: Current time: Thu Sep 18 04:27:54 +14 2025 +I: pbuilder-time-stamp: 1758119274 Compressing the 2nd log... /var/lib/jenkins/userContent/reproducible/debian/logdiffs/forky/arm64/sideretro_1.1.6-2.diff: 91.9% -- replaced with /var/lib/jenkins/userContent/reproducible/debian/logdiffs/forky/arm64/sideretro_1.1.6-2.diff.gz b2/build.log: 85.5% -- replaced with stdout Compressing the 1st log... b1/build.log: 85.9% -- replaced with stdout Wed Sep 17 14:27:56 UTC 2025 I: diffoscope 306 will be used to compare the two builds: ++ date -u +%s + DIFFOSCOPE_STAMP=/var/log/reproducible-builds/diffoscope_stamp_sideretro_forky_arm64_1758119276 + touch /var/log/reproducible-builds/diffoscope_stamp_sideretro_forky_arm64_1758119276 + RESULT=0 + systemd-run '--description=diffoscope on sideretro/1.1.6-2 in forky/arm64' --slice=rb-build-diffoscope.slice -u rb-diffoscope-arm64_4-97850 '--property=SuccessExitStatus=1 124' --user --send-sighup --pipe --wait -E TMPDIR timeout 155m nice schroot --directory /srv/reproducible-results/rbuild-debian/r-b-build.g8Ofgp54 --run-session -c jenkins-reproducible-forky-diffoscope-7c9c2a02-e9cc-48ea-842f-38fa7d1a839e -- sh -c 'export TMPDIR=/srv/reproducible-results/rbuild-debian/r-b-build.g8Ofgp54/dbd-tmp-n8i4cLs ; timeout 150m diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.g8Ofgp54/sideretro_1.1.6-2.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.g8Ofgp54/sideretro_1.1.6-2.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.g8Ofgp54/sideretro_1.1.6-2.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.g8Ofgp54/b1/sideretro_1.1.6-2_arm64.changes /srv/reproducible-results/rbuild-debian/r-b-build.g8Ofgp54/b2/sideretro_1.1.6-2_arm64.changes' + false + set +x Running as unit: rb-diffoscope-arm64_4-97850.service; invocation ID: 72def08b914c4fabbcd1c4577210a7fe # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.g8Ofgp54/sideretro_1.1.6-2.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.g8Ofgp54/sideretro_1.1.6-2.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.g8Ofgp54/sideretro_1.1.6-2.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.g8Ofgp54/b1/sideretro_1.1.6-2_arm64.changes /srv/reproducible-results/rbuild-debian/r-b-build.g8Ofgp54/b2/sideretro_1.1.6-2_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: 218ms CPU time consumed: 169ms Memory peak: 17.4M (swap: 0B) _ _ _ ___(_) __| | ___ _ __ ___| |_ _ __ ___ / __| |/ _` |/ _ \ '__/ _ \ __| '__/ _ \ \__ \ | (_| | __/ | | __/ |_| | | (_) | |___/_|\__,_|\___|_| \___|\__|_| \___/ Wed Sep 17 14:27:57 UTC 2025 I: diffoscope 306 found no differences in the changes files, and a .buildinfo file also exists. Wed Sep 17 14:27:57 UTC 2025 I: sideretro from forky built successfully and reproducibly on arm64. INSERT 0 1 INSERT 0 1 DELETE 1 [2025-09-17 14:27:57] INFO: Starting at 2025-09-17 14:27:57.518101 [2025-09-17 14:27:57] INFO: Generating the pages of 1 package(s) [2025-09-17 14:27:57] CRITICAL: https://tests.reproducible-builds.org/debian/forky/arm64/sideretro didn't produce a buildlog, even though it has been built. [2025-09-17 14:27:57] INFO: Finished at 2025-09-17 14:27:57.668853, took: 0:00:00.150755 Wed Sep 17 14:27:57 UTC 2025 - successfully updated the database and updated https://tests.reproducible-builds.org/debian/rb-pkg/forky/arm64/sideretro.html Wed Sep 17 14:27:57 UTC 2025 I: Removing signed sideretro_1.1.6-2_arm64.buildinfo.asc files: removed './b1/sideretro_1.1.6-2_arm64.buildinfo.asc' removed './b2/sideretro_1.1.6-2_arm64.buildinfo.asc' 1758119277 arm64 forky sideretro Starting cleanup. /var/lib/jenkins/userContent/reproducible/debian/rbuild/forky/arm64/sideretro_1.1.6-2.rbuild.log: 84.3% -- replaced with /var/lib/jenkins/userContent/reproducible/debian/rbuild/forky/arm64/sideretro_1.1.6-2.rbuild.log.gz [2025-09-17 14:27:57] INFO: Starting at 2025-09-17 14:27:57.989054 [2025-09-17 14:27:58] INFO: Generating the pages of 1 package(s) [2025-09-17 14:27:58] INFO: Finished at 2025-09-17 14:27:58.157467, took: 0:00:00.168415 All cleanup done. Wed Sep 17 14:27:58 UTC 2025 - total duration: 0h 2m 13s. Wed Sep 17 14:27:58 UTC 2025 - reproducible_build.sh stopped running as /tmp/jenkins-script-0SYoLZPg, removing. Finished with result: success Main processes terminated with: code=exited, status=0/SUCCESS Service runtime: 2min 13.425s CPU time consumed: 2.891s Memory peak: 37.2M (swap: 0B)