Running as unit: rb-build-amd64_4-73423.service; invocation ID: c947a6a9d18a40a8a257782851c893a7 ==================================================================================== Sat Nov 1 10:29:20 UTC 2025 - running /srv/jenkins/bin/reproducible_build.sh (for job reproducible_builder_amd64_4) on jenkins, called using "ionos15-amd64 ionos1-amd64" as arguments. Sat Nov 1 10:29:20 UTC 2025 - actually running "reproducible_build.sh" (md5sum bcb6fe1b50cf4e8eedacd0971a9eb63f) as "/tmp/jenkins-script-VxtkLATQ" $ git clone https://salsa.debian.org/qa/jenkins.debian.net.git ; more CONTRIBUTING Sat Nov 1 10:29:20 UTC 2025 - checking /var/lib/jenkins/offline_nodes if ionos15-amd64.debian.net is marked as down. Sat Nov 1 10:29:20 UTC 2025 - checking via ssh if ionos15-amd64.debian.net is up. removed '/tmp/read-only-fs-test-lqa3oz' Sat Nov 1 10:29:21 UTC 2025 - checking /var/lib/jenkins/offline_nodes if ionos1-amd64.debian.net is marked as down. Sat Nov 1 10:29:21 UTC 2025 - checking via ssh if ionos1-amd64.debian.net is up. removed '/tmp/read-only-fs-test-k2N21e' ok, let's check if spaln is building anywhere yet… ok, spaln is not building anywhere… UPDATE 1 ============================================================================= Initialising reproducibly build of spaln in unstable on amd64 on jenkins now. 1st build will be done on ionos15-amd64.debian.net. 2nd build will be done on ionos1-amd64.debian.net. ============================================================================= Sat Nov 1 10:29:27 UTC 2025 I: starting to build spaln/unstable/amd64 on jenkins on '2025-11-01 10:29' Sat Nov 1 10:29:27 UTC 2025 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/amd64_4/73423/console.log 1761992967 amd64 unstable spaln Sat Nov 1 10:29:27 UTC 2025 I: Downloading source for unstable/spaln=3.0.2+dfsg-2 --2025-11-01 10:29:27-- http://deb.debian.org/debian/pool/main/s/spaln/spaln_3.0.2%2bdfsg-2.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2224 (2.2K) [text/prs.lines.tag] Saving to: ‘spaln_3.0.2+dfsg-2.dsc’ 0K .. 100% 264M=0s 2025-11-01 10:29:27 (264 MB/s) - ‘spaln_3.0.2+dfsg-2.dsc’ saved [2224/2224] --2025-11-01 10:29:27-- http://deb.debian.org/debian/pool/main/s/spaln/spaln_3.0.2%2bdfsg-2.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2224 (2.2K) [text/prs.lines.tag] Saving to: ‘spaln_3.0.2+dfsg-2.dsc’ 0K .. 100% 264M=0s 2025-11-01 10:29:27 (264 MB/s) - ‘spaln_3.0.2+dfsg-2.dsc’ saved [2224/2224] Sat Nov 1 10:29:27 UTC 2025 I: spaln_3.0.2+dfsg-2.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA256 Format: 3.0 (quilt) Source: spaln Binary: spaln, spaln-data Architecture: amd64 arm64 loong64 mips64el ppc64el s390x alpha ia64 kfreebsd-amd64 ppc64 riscv64 sparc64 all Version: 3.0.2+dfsg-2 Maintainer: Debian Med Packaging Team Uploaders: Steffen Moeller Homepage: https://github.com/ogotoh/spaln Standards-Version: 4.6.2 Vcs-Browser: https://salsa.debian.org/med-team/spaln Vcs-Git: https://salsa.debian.org/med-team/spaln.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 13), zlib1g-dev, libgsl-dev Package-List: spaln deb science optional arch=amd64,arm64,loong64,mips64el,ppc64el,s390x,alpha,ia64,kfreebsd-amd64,ppc64,riscv64,sparc64 spaln-data deb science optional arch=all Checksums-Sha1: 6d71b8bb7e3a9c69dd4142c5f9ac42a26982bb00 19782380 spaln_3.0.2+dfsg.orig.tar.xz d2836b50c01cc39750a9728877f740d375ee7b65 6124 spaln_3.0.2+dfsg-2.debian.tar.xz Checksums-Sha256: 323d16a645b8c1194a81e20aa073482dd2d9099cd7d07c521cab452261d81166 19782380 spaln_3.0.2+dfsg.orig.tar.xz 1ad652d39ebf50ceba8b6ab1c4e475357d4dec95114c36a8a3df37e2252f31fb 6124 spaln_3.0.2+dfsg-2.debian.tar.xz Files: b2f03433bc27b3f6cc5d12b8341a18ea 19782380 spaln_3.0.2+dfsg.orig.tar.xz df0fcd7e2c199d7dc6375d502426f393 6124 spaln_3.0.2+dfsg-2.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCAAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAmXKg9URHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtF6nA/9GuszpJ58JHsvNF59ncvqMb8IUMBjUFzA RGhc3peRb2EAXJ2UiM+1aEenQ5yVOWhJJAIoEFpKUH1v++lven+KVAN46iuTu5Ri N71JcY4munWRgf0Wrii80a4tBVKLKO6gUD4zxNYypOPPSfalwu8Mra0tiCowQwgU zoznjUJGdbFDd9vGVUmhqeEnCkSrxaeg1CKN0eNXtlwxe8YYV6KdunJa8SsqioWO bMEOSecPnPpr/giJWVhOkCgDMXggczADczOw69P5EbXpEfTnz/bKkm+5oy509NHr AhQ0bCfLFNAG5iu7WY40JlYI2o9RkRVF6BcCBrPVVg67d02mZoUkyXPA9abFsk8S 7EdkE0B2SNUT4CWv6XhaY4Do+iEoZ2eWEVpufbE2COB7bfxWfc46y2S3beY56xQL AOXPLGb42Japytn/IJCmCaOI3mnmLIqRJuQlanMPNqDFdbQY6s1mqLULPelUivZR APRo+yet/gYYo+2u4UREmNvBCIb9Mg/urczAYbBelivQD/gvhIl5zD0N6J5iQ+xV tCkELRVg3r6l2JAwPwjMPVRw4K4IwzwHsSjK0S08MWg3thff1ELC3KO8ojEijDGT GqMNji3ors1+E+wkTj2xpfz0+L/gZBZK3e0r/w6jXYLw5KsFKx2MCS/yX61Ii4H7 QvUbknNnOrQ= =fdQG -----END PGP SIGNATURE----- Sat Nov 1 10:29:27 UTC 2025 I: Checking whether the package is not for us Sat Nov 1 10:29:27 UTC 2025 I: Starting 1st build on remote node ionos15-amd64.debian.net. Sat Nov 1 10:29:27 UTC 2025 I: Preparing to do remote build '1' on ionos15-amd64.debian.net. Sat Nov 1 10:29:27 UTC 2025 - checking /var/lib/jenkins/offline_nodes if ionos15-amd64.debian.net is marked as down. Sat Nov 1 10:29:27 UTC 2025 - checking via ssh if ionos15-amd64.debian.net is up. removed '/tmp/read-only-fs-test-vvANgQ' ==================================================================================== Fri Dec 4 16:52:27 UTC 2026 - running /srv/jenkins/bin/reproducible_build.sh (for job /srv/jenkins/bin/reproducible_build.sh) on ionos15-amd64, called using "1 spaln unstable /srv/reproducible-results/rbuild-debian/r-b-build.1WvqLAiB 3.0.2+dfsg-2" as arguments. Fri Dec 4 16:52:27 UTC 2026 - actually running "reproducible_build.sh" (md5sum bcb6fe1b50cf4e8eedacd0971a9eb63f) as "/tmp/jenkins-script-1Xl0AaPt" $ git clone https://salsa.debian.org/qa/jenkins.debian.net.git ; more CONTRIBUTING Fri Dec 4 16:52:27 UTC 2026 I: Downloading source for unstable/spaln=3.0.2+dfsg-2 Reading package lists... NOTICE: 'spaln' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/spaln.git Please use: git clone https://salsa.debian.org/med-team/spaln.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 19.8 MB of source archives. Get:1 http://deb.debian.org/debian unstable/main spaln 3.0.2+dfsg-2 (dsc) [2224 B] Get:2 http://deb.debian.org/debian unstable/main spaln 3.0.2+dfsg-2 (tar) [19.8 MB] Get:3 http://deb.debian.org/debian unstable/main spaln 3.0.2+dfsg-2 (diff) [6124 B] Fetched 19.8 MB in 0s (98.8 MB/s) Download complete and in download only mode Reading package lists... NOTICE: 'spaln' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/spaln.git Please use: git clone https://salsa.debian.org/med-team/spaln.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 19.8 MB of source archives. Get:1 http://deb.debian.org/debian unstable/main spaln 3.0.2+dfsg-2 (dsc) [2224 B] Get:2 http://deb.debian.org/debian unstable/main spaln 3.0.2+dfsg-2 (tar) [19.8 MB] Get:3 http://deb.debian.org/debian unstable/main spaln 3.0.2+dfsg-2 (diff) [6124 B] Fetched 19.8 MB in 0s (98.8 MB/s) Download complete and in download only mode ============================================================================= Building spaln in unstable on amd64 on ionos15-amd64 now. Date: Fri Dec 4 16:52:28 UTC 2026 Date UTC: Fri Dec 4 16:52:28 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: Fri Dec 4 04:52:28 -12 2026 I: pbuilder-time-stamp: 1796403148 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-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 [spaln_3.0.2+dfsg-2.dsc] I: copying [./spaln_3.0.2+dfsg.orig.tar.xz] I: copying [./spaln_3.0.2+dfsg-2.debian.tar.xz] I: Extracting source dpkg-source: warning: cannot verify inline signature for ./spaln_3.0.2+dfsg-2.dsc: no acceptable signature found dpkg-source: info: extracting spaln in spaln-3.0.2+dfsg dpkg-source: info: unpacking spaln_3.0.2+dfsg.orig.tar.xz dpkg-source: info: unpacking spaln_3.0.2+dfsg-2.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying hardening.patch dpkg-source: info: applying portability.patch dpkg-source: info: applying add_path_to_testscript.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/863081/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build/reproducible-path' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='amd64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=42 ' DISTRIBUTION='unstable' HOME='/root' HOST_ARCH='amd64' IFS=' ' INVOCATION_ID='999d2a0493744673860098011e341305' 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='863081' 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.1WvqLAiB/pbuilderrc_Ld1X --distribution unstable --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.1WvqLAiB/b1 --logfile b1/build.log spaln_3.0.2+dfsg-2.dsc' SUDO_GID='111' SUDO_HOME='/var/lib/jenkins' SUDO_UID='106' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://213.165.73.152:3128' I: uname -a Linux ionos15-amd64 6.12.48+deb13-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.12.48-1 (2025-09-20) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Aug 10 2025 /bin -> usr/bin I: user script /srv/workspace/pbuilder/863081/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: amd64 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13), zlib1g-dev, libgsl-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 ... 19862 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on zlib1g-dev; however: Package zlib1g-dev is not installed. pbuilder-satisfydepends-dummy depends on libgsl-dev; however: Package libgsl-dev is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libdebhelper-perl{a} libelf1t64{a} libfile-stripnondeterminism-perl{a} libgsl-dev{a} libgsl28{a} libgslcblas0{a} libmagic-mgc{a} libmagic1t64{a} libpipeline1{a} libtool{a} libuchardet0{a} libunistring5{a} libxml2-16{a} m4{a} man-db{a} po-debconf{a} sensible-utils{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: curl libarchive-cpio-perl libltdl-dev libmail-sendmail-perl lynx wget 0 packages upgraded, 33 newly installed, 0 to remove and 0 not upgraded. Need to get 14.7 MB of archives. After unpacking 56.6 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian unstable/main amd64 sensible-utils all 0.0.26 [27.0 kB] Get: 2 http://deb.debian.org/debian unstable/main amd64 libmagic-mgc amd64 1:5.46-5 [338 kB] Get: 3 http://deb.debian.org/debian unstable/main amd64 libmagic1t64 amd64 1:5.46-5 [109 kB] Get: 4 http://deb.debian.org/debian unstable/main amd64 file amd64 1:5.46-5 [43.6 kB] Get: 5 http://deb.debian.org/debian unstable/main amd64 gettext-base amd64 0.23.1-2+b1 [244 kB] Get: 6 http://deb.debian.org/debian unstable/main amd64 libuchardet0 amd64 0.0.8-2 [68.5 kB] Get: 7 http://deb.debian.org/debian unstable/main amd64 groff-base amd64 1.23.0-9 [1187 kB] Get: 8 http://deb.debian.org/debian unstable/main amd64 bsdextrautils amd64 2.41.2-4 [98.5 kB] Get: 9 http://deb.debian.org/debian unstable/main amd64 libpipeline1 amd64 1.5.8-1 [42.0 kB] Get: 10 http://deb.debian.org/debian unstable/main amd64 man-db amd64 2.13.1-1 [1469 kB] Get: 11 http://deb.debian.org/debian unstable/main amd64 m4 amd64 1.4.20-2 [325 kB] Get: 12 http://deb.debian.org/debian unstable/main amd64 autoconf all 2.72-3.1 [494 kB] Get: 13 http://deb.debian.org/debian unstable/main amd64 autotools-dev all 20240727.1 [60.2 kB] Get: 14 http://deb.debian.org/debian unstable/main amd64 automake all 1:1.18.1-2 [877 kB] Get: 15 http://deb.debian.org/debian unstable/main amd64 autopoint all 0.23.1-2 [770 kB] Get: 16 http://deb.debian.org/debian unstable/main amd64 libdebhelper-perl all 13.28 [92.4 kB] Get: 17 http://deb.debian.org/debian unstable/main amd64 libtool all 2.5.4-7 [540 kB] Get: 18 http://deb.debian.org/debian unstable/main amd64 dh-autoreconf all 21 [12.2 kB] Get: 19 http://deb.debian.org/debian unstable/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 20 http://deb.debian.org/debian unstable/main amd64 libfile-stripnondeterminism-perl all 1.15.0-1 [19.9 kB] Get: 21 http://deb.debian.org/debian unstable/main amd64 dh-strip-nondeterminism all 1.15.0-1 [8812 B] Get: 22 http://deb.debian.org/debian unstable/main amd64 libelf1t64 amd64 0.194-1 [185 kB] Get: 23 http://deb.debian.org/debian unstable/main amd64 dwz amd64 0.16-2 [108 kB] Get: 24 http://deb.debian.org/debian unstable/main amd64 libunistring5 amd64 1.3-2 [477 kB] Get: 25 http://deb.debian.org/debian unstable/main amd64 libxml2-16 amd64 2.15.1+dfsg-0.3 [640 kB] Get: 26 http://deb.debian.org/debian unstable/main amd64 gettext amd64 0.23.1-2+b1 [1680 kB] Get: 27 http://deb.debian.org/debian unstable/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 28 http://deb.debian.org/debian unstable/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 29 http://deb.debian.org/debian unstable/main amd64 debhelper all 13.28 [941 kB] Get: 30 http://deb.debian.org/debian unstable/main amd64 libgslcblas0 amd64 2.8+dfsg-5.1 [137 kB] Get: 31 http://deb.debian.org/debian unstable/main amd64 libgsl28 amd64 2.8+dfsg-5.1 [1068 kB] Get: 32 http://deb.debian.org/debian unstable/main amd64 libgsl-dev amd64 2.8+dfsg-5.1 [1336 kB] Get: 33 http://deb.debian.org/debian unstable/main amd64 zlib1g-dev amd64 1:1.3.dfsg+really1.3.1-1+b1 [920 kB] Fetched 14.7 MB in 0s (104 MB/s) Preconfiguring packages ... Selecting previously unselected package sensible-utils. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19862 files and directories currently installed.) Preparing to unpack .../00-sensible-utils_0.0.26_all.deb ... Unpacking sensible-utils (0.0.26) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../01-libmagic-mgc_1%3a5.46-5_amd64.deb ... Unpacking libmagic-mgc (1:5.46-5) ... Selecting previously unselected package libmagic1t64:amd64. Preparing to unpack .../02-libmagic1t64_1%3a5.46-5_amd64.deb ... Unpacking libmagic1t64:amd64 (1:5.46-5) ... Selecting previously unselected package file. Preparing to unpack .../03-file_1%3a5.46-5_amd64.deb ... Unpacking file (1:5.46-5) ... Selecting previously unselected package gettext-base. Preparing to unpack .../04-gettext-base_0.23.1-2+b1_amd64.deb ... Unpacking gettext-base (0.23.1-2+b1) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../05-libuchardet0_0.0.8-2_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.8-2) ... Selecting previously unselected package groff-base. Preparing to unpack .../06-groff-base_1.23.0-9_amd64.deb ... Unpacking groff-base (1.23.0-9) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../07-bsdextrautils_2.41.2-4_amd64.deb ... Unpacking bsdextrautils (2.41.2-4) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../08-libpipeline1_1.5.8-1_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.8-1) ... Selecting previously unselected package man-db. Preparing to unpack .../09-man-db_2.13.1-1_amd64.deb ... Unpacking man-db (2.13.1-1) ... Selecting previously unselected package m4. Preparing to unpack .../10-m4_1.4.20-2_amd64.deb ... Unpacking m4 (1.4.20-2) ... Selecting previously unselected package autoconf. Preparing to unpack .../11-autoconf_2.72-3.1_all.deb ... Unpacking autoconf (2.72-3.1) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../12-autotools-dev_20240727.1_all.deb ... Unpacking autotools-dev (20240727.1) ... Selecting previously unselected package automake. Preparing to unpack .../13-automake_1%3a1.18.1-2_all.deb ... Unpacking automake (1:1.18.1-2) ... Selecting previously unselected package autopoint. Preparing to unpack .../14-autopoint_0.23.1-2_all.deb ... Unpacking autopoint (0.23.1-2) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../15-libdebhelper-perl_13.28_all.deb ... Unpacking libdebhelper-perl (13.28) ... Selecting previously unselected package libtool. Preparing to unpack .../16-libtool_2.5.4-7_all.deb ... Unpacking libtool (2.5.4-7) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../17-dh-autoreconf_21_all.deb ... Unpacking dh-autoreconf (21) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../18-libarchive-zip-perl_1.68-1_all.deb ... Unpacking libarchive-zip-perl (1.68-1) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../19-libfile-stripnondeterminism-perl_1.15.0-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.15.0-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../20-dh-strip-nondeterminism_1.15.0-1_all.deb ... Unpacking dh-strip-nondeterminism (1.15.0-1) ... Selecting previously unselected package libelf1t64:amd64. Preparing to unpack .../21-libelf1t64_0.194-1_amd64.deb ... Unpacking libelf1t64:amd64 (0.194-1) ... Selecting previously unselected package dwz. Preparing to unpack .../22-dwz_0.16-2_amd64.deb ... Unpacking dwz (0.16-2) ... Selecting previously unselected package libunistring5:amd64. Preparing to unpack .../23-libunistring5_1.3-2_amd64.deb ... Unpacking libunistring5:amd64 (1.3-2) ... Selecting previously unselected package libxml2-16:amd64. Preparing to unpack .../24-libxml2-16_2.15.1+dfsg-0.3_amd64.deb ... Unpacking libxml2-16:amd64 (2.15.1+dfsg-0.3) ... Selecting previously unselected package gettext. Preparing to unpack .../25-gettext_0.23.1-2+b1_amd64.deb ... Unpacking gettext (0.23.1-2+b1) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../26-intltool-debian_0.35.0+20060710.6_all.deb ... Unpacking intltool-debian (0.35.0+20060710.6) ... Selecting previously unselected package po-debconf. 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Building tag database... -> Finished parsing the build-deps I: Building the package I: Running cd /build/reproducible-path/spaln-3.0.2+dfsg/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../spaln_3.0.2+dfsg-2_source.changes dpkg-buildpackage: info: source package spaln dpkg-buildpackage: info: source version 3.0.2+dfsg-2 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean --sourcedirectory=src debian/rules override_dh_auto_clean make[1]: Entering directory '/build/reproducible-path/spaln-3.0.2+dfsg' dh_auto_clean || true rm -f src/dbs.h src/iolib.h src/*.o src/*.a src/Makefile make[1]: Leaving directory '/build/reproducible-path/spaln-3.0.2+dfsg' dh_autoreconf_clean -O--sourcedirectory=src dh_clean -O--sourcedirectory=src rm -f debian/debhelper-build-stamp rm -rf debian/.debhelper/ rm -f -- debian/spaln.substvars debian/spaln-data.substvars debian/files rm -fr -- debian/spaln/ debian/tmp/ debian/spaln-data/ find . \( \( \ \( -path .\*/.git -o -path .\*/.svn -o -path .\*/.bzr -o -path .\*/.hg -o -path .\*/CVS -o -path .\*/.pc -o -path .\*/_darcs \) -prune -o -type f -a \ \( -name '#*#' -o -name '.*~' -o -name '*~' -o -name DEADJOE \ -o -name '*.orig' -o -name '*.rej' -o -name '*.bak' \ -o -name '.*.orig' -o -name .*.rej -o -name '.SUMS' \ -o -name TAGS -o \( -path '*/.deps/*' -a -name '*.P' \) \ \) -exec rm -f {} + \) -o \ \( -type d -a \( -name autom4te.cache -o -name __pycache__ \) -prune -exec rm -rf {} + \) \) debian/rules binary dh binary --sourcedirectory=src dh_update_autotools_config -O--sourcedirectory=src dh_autoreconf -O--sourcedirectory=src debian/rules override_dh_auto_configure make[1]: Entering directory '/build/reproducible-path/spaln-3.0.2+dfsg' # the configure script is not originated from autoconf and needs to be manually called cd src && AR="x86_64-linux-gnu-ar rc" exec_prefix=/usr/bin table_dir=/usr/share/spaln/table alndbs_dir=/usr/share/spaln/seqdb ./configure OK, CXX=x86_64-linux-gnu-g++ CFLAGS=-g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic binaries install to /usr/bin tables install to /usr/share/spaln/table alndbs install to /usr/share/spaln/seqdb wrote Makefile wrote files OK. try make and make install. good luck! make[1]: Leaving directory '/build/reproducible-path/spaln-3.0.2+dfsg' debian/rules override_dh_auto_build make[1]: Entering directory '/build/reproducible-path/spaln-3.0.2+dfsg' dh_auto_build -- table_dir=/usr/share/spaln/table alndbs_dir=/usr/share/spaln/seqdb exec_prefix=/usr/bin cd src && make -j42 table_dir=/usr/share/spaln/table alndbs_dir=/usr/share/spaln/seqdb exec_prefix=/usr/bin make[2]: Entering directory '/build/reproducible-path/spaln-3.0.2+dfsg/src' x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c blksrc.cc x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c aln2.cc x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c dbs.cc x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c gaps.cc x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c codepot.cc x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c divseq.cc x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c gsinfo.cc x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c fwd2b1.cc x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c fwd2d1.cc x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c fwd2h1.cc x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c fwd2s1.cc cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c bitpat.cc x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c eijunc.cc cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c seq.cc x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c simmtx.cc cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c sqpr.cc cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c utilseq.cc cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c vmf.cc cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c wln.cc cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c boyer_moore.cc cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c clib.cc cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c iolib.cc cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c mfile.cc cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c sets.cc x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c supprime.cc cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ seq.cc: In function 'void reportseq(Seq**, int)': seq.cc:483:50: warning: format '%p' expects argument of type 'void*', but argument 9 has type 'int*' [-Wformat=] 483 | printf("%d\t%d\t%d\t%d\t%d\t%d\t%p\t%p\n", i + 1, | ~^ | | | void* | %n 484 | sd->sid, sd->vrtl, sd->len, sd->area_, sd->did, sd->seq_, sd->lens); | ~~~~~~~~ | | | int* x86_64-linux-gnu-ar rc clib.a clib.o iolib.o mfile.o sets.o supprime.o x86_64-linux-gnu-ranlib clib.a x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -o makmdm makmdm.cc clib.a -lpthread -lm -lz -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ x86_64-linux-gnu-ar rc sblib.a aln2.o dbs.o gaps.o codepot.o divseq.o gsinfo.o \ fwd2b1.o fwd2d1.o fwd2h1.o fwd2s1.o bitpat.o eijunc.o \ seq.o simmtx.o sqpr.o utilseq.o vmf.o wln.o boyer_moore.o x86_64-linux-gnu-ranlib sblib.a x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -o sortgrcd sortgrcd.cc sblib.a clib.a -lpthread -lm -lz -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -o makdbs makdbs.cc sblib.a clib.a -lpthread -lm -lz -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -o spaln spaln.cc blksrc.o sblib.a clib.a -lpthread -lm -lz -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ sortgrcd.cc: In function 'int count_record(const char*, const char*, size_t)': sortgrcd.cc:999:25: warning: ISO C++ forbids variable length array 'buf' [-Wvla] 999 | char buf[rcdsize]; | ^~~ spaln.cc: In function 'blkaln.isra': spaln.cc:858:46: warning: argument 1 value '18446744073709551615' exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 858 | Gsinfo* GsI = new Gsinfo[nparalog + 1]; | ^ /usr/include/c++/15/new:140:26: note: in a call to allocation function 'operator new []' declared here 140 | _GLIBCXX_NODISCARD void* operator new[](std::size_t) | ^ In function 'match_2', inlined from 'spaln_job' at spaln.cc:1142:14: spaln.cc:764:46: warning: argument 1 value '18446744073709551615' exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 764 | Gsinfo* GsI = new Gsinfo[nparalog + 1]; | ^ /usr/include/c++/15/new: In function 'spaln_job': /usr/include/c++/15/new:140:26: note: in a call to allocation function 'operator new []' declared here 140 | _GLIBCXX_NODISCARD void* operator new[](std::size_t) | ^ make[2]: Leaving directory '/build/reproducible-path/spaln-3.0.2+dfsg/src' make[1]: Leaving directory '/build/reproducible-path/spaln-3.0.2+dfsg' dh_auto_test -O--sourcedirectory=src cd src && make -j42 test TESTSUITEFLAGS="-j42 --verbose" VERBOSE=1 make[1]: Entering directory '/build/reproducible-path/spaln-3.0.2+dfsg/src' x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c autocomp.cc x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c extcds.cc x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c montseq.cc x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c pattern.cc x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c resite.cc x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -o exinpot exinpot.cc sblib.a clib.a -lpthread -lm -lz x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -o kmers kmers.cc sblib.a clib.a -lpthread -lm -lz x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -o npssm npssm.cc sblib.a clib.a -lpthread -lm -lz x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c utn.cc x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c ildpdf.cc x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c decompild.cc x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c fitild.cc cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ x86_64-linux-gnu-ar rc ublib.a autocomp.o extcds.o \ montseq.o pattern.o resite.o x86_64-linux-gnu-ranlib ublib.a x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -o dvn dvn.cc ublib.a sblib.a clib.a -lpthread -lm -lz x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -o rdn rdn.cc ublib.a sblib.a clib.a -lpthread -lm -lz cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -o fitild -DMAIN fitild.cc ildpdf.o clib.a -lpthread -lm -lz \ -L/usr/local/lib -lm -lgsl -lgslcblas x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -o compild compild.cc ildpdf.o clib.a -lpthread -lm -lz -lm -lgsl -lgslcblas x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -o decompild decompild.o ildpdf.o fitild.o clib.a -lpthread -lm -lz -lgsl -lgslcblas x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -o plotild plotild.cc ildpdf.o clib.a -lpthread -lm -lz -lm -lgsl -lgslcblas cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ plotild.cc: In function 'getiprms': plotild.cc:136:49: warning: argument 1 value '18446744073709551615' exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 136 | IldPrm* ipprm = new IldPrm[nn + nprm + 1]; | ^ /usr/include/c++/15/new:140:26: note: in a call to allocation function 'operator new []' declared here 140 | _GLIBCXX_NODISCARD void* operator new[](std::size_t) | ^ x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -o utn utn.o ublib.a sblib.a clib.a -lpthread -lm -lz please make install before test make[1]: Leaving directory '/build/reproducible-path/spaln-3.0.2+dfsg/src' rm -fr -- /tmp/dh-xdg-rundir-xOFHeocr create-stamp debian/debhelper-build-stamp dh_testroot -O--sourcedirectory=src dh_prep -O--sourcedirectory=src rm -f -- debian/spaln.substvars debian/spaln-data.substvars rm -fr -- debian/.debhelper/generated/spaln/ debian/spaln/ debian/tmp/ debian/.debhelper/generated/spaln-data/ debian/spaln-data/ rm -f debian/spaln-data.debhelper.log debian/spaln.debhelper.log debian/rules override_dh_auto_install make[1]: Entering directory '/build/reproducible-path/spaln-3.0.2+dfsg' dh_auto_install -- table_dir=/usr/share/spaln/table alndbs_dir=/usr/share/spaln/seqdb exec_prefix=/usr/bin install -m0755 -d /build/reproducible-path/spaln-3.0.2\+dfsg/debian/tmp cd src && make -j42 install DESTDIR=/build/reproducible-path/spaln-3.0.2\+dfsg/debian/tmp AM_UPDATE_INFO_DIR=no table_dir=/usr/share/spaln/table alndbs_dir=/usr/share/spaln/seqdb exec_prefix=/usr/bin make[2]: Entering directory '/build/reproducible-path/spaln-3.0.2+dfsg/src' test -d /build/reproducible-path/spaln-3.0.2+dfsg/debian/tmp/usr/bin || mkdir -p /build/reproducible-path/spaln-3.0.2+dfsg/debian/tmp/usr/bin if [ -s spaln ]; then\ cp spaln sortgrcd makmdm makdbs /build/reproducible-path/spaln-3.0.2+dfsg/debian/tmp/usr/bin; \ fi if [ -s exinpot ]; then \ cp dvn exinpot kmers npssm rdn utn /build/reproducible-path/spaln-3.0.2+dfsg/debian/tmp/usr/bin; \ fi if [ -s fitild ]; then \ cp fitild compild decompild plotild /build/reproducible-path/spaln-3.0.2+dfsg/debian/tmp/usr/bin; \ fi test -d /build/reproducible-path/spaln-3.0.2+dfsg/debian/tmp/usr/share/spaln/table || mkdir -p /build/reproducible-path/spaln-3.0.2+dfsg/debian/tmp/usr/share/spaln/table ./makmdm /build/reproducible-path/spaln-3.0.2+dfsg/debian/tmp/usr/share/spaln/table 7.6862 5.1057 4.2546 5.1269 2.0279 4.1061 6.1820 7.4714 2.2983 5.2569 9.1111 5.9498 2.3414 4.0530 5.0532 6.8225 5.8518 1.4336 3.2303 6.6374 Pam = 0 Norl fact = 106.899 trace = 106.899 Pam = 10 Norl fact = 13.996 trace = 41.995 Pam = 20 Norl fact = 15.588 trace = 45.299 Pam = 30 Norl fact = 16.894 trace = 47.531 Pam = 40 Norl fact = 18.094 trace = 49.266 Pam = 50 Norl fact = 19.249 trace = 50.701 Pam = 60 Norl fact = 20.386 trace = 51.928 Pam = 70 Norl fact = 21.522 trace = 52.997 Pam = 80 Norl fact = 22.667 trace = 53.943 Pam = 90 Norl fact = 23.828 trace = 54.788 Pam = 100 Norl fact = 25.012 trace = 55.547 Pam = 110 Norl fact = 26.222 trace = 56.234 Pam = 120 Norl fact = 27.462 trace = 56.858 Pam = 130 Norl fact = 28.735 trace = 57.427 Pam = 140 Norl fact = 30.044 trace = 57.946 Pam = 150 Norl fact = 31.391 trace = 58.421 Pam = 160 Norl fact = 32.778 trace = 58.858 Pam = 170 Norl fact = 34.208 trace = 59.259 Pam = 180 Norl fact = 35.683 trace = 59.629 Pam = 190 Norl fact = 37.204 trace = 59.970 Pam = 200 Norl fact = 38.774 trace = 60.286 Pam = 210 Norl fact = 40.394 trace = 60.580 Pam = 220 Norl fact = 42.066 trace = 60.854 Pam = 230 Norl fact = 43.793 trace = 61.110 Pam = 240 Norl fact = 45.577 trace = 61.350 Pam = 250 Norl fact = 47.419 trace = 61.576 Pam = 260 Norl fact = 49.322 trace = 61.791 Pam = 270 Norl fact = 51.287 trace = 61.996 Pam = 280 Norl fact = 53.318 trace = 62.191 Pam = 290 Norl fact = 55.415 trace = 62.380 Pam = 300 Norl fact = 57.582 trace = 62.563 test -d /build/reproducible-path/spaln-3.0.2+dfsg/debian/tmp/usr/share/spaln/seqdb || mkdir -p /build/reproducible-path/spaln-3.0.2+dfsg/debian/tmp/usr/share/spaln/seqdb make[2]: Leaving directory '/build/reproducible-path/spaln-3.0.2+dfsg/src' make[1]: Leaving directory '/build/reproducible-path/spaln-3.0.2+dfsg' dh_install -O--sourcedirectory=src install -m0755 -d debian/spaln//usr cp --reflink=auto -a debian/tmp/usr/bin debian/spaln//usr/ install -m0755 -d debian/spaln-data//usr cp --reflink=auto -a debian/tmp/usr/share debian/spaln-data//usr/ dh_installdocs -O--sourcedirectory=src install -m0755 -d debian/spaln/usr/share/doc/spaln install -m0755 -d debian/spaln/usr/share/doc/spaln cp --reflink=auto -a ./README.md debian/spaln/usr/share/doc/spaln cp --reflink=auto -a ./debian/README.test debian/spaln/usr/share/doc/spaln cp --reflink=auto -a ./debian/tests/run-unit-test debian/spaln/usr/share/doc/spaln chmod -R u\+rw,go=rX debian/spaln/usr/share/doc install -p -m0644 debian/README.Debian debian/spaln/usr/share/doc/spaln/README.Debian install -p -m0644 debian/copyright debian/spaln/usr/share/doc/spaln/copyright install -m0755 -d debian/spaln-data/usr/share/doc/spaln-data install -p -m0644 debian/copyright debian/spaln-data/usr/share/doc/spaln-data/copyright dh_installchangelogs -O--sourcedirectory=src install -m0755 -d debian/spaln-data/usr/share/doc/spaln-data install -p -m0644 debian/.debhelper/generated/spaln-data/dh_installchangelogs.dch.trimmed debian/spaln-data/usr/share/doc/spaln-data/changelog.Debian install -m0755 -d debian/spaln/usr/share/doc/spaln install -p -m0644 debian/.debhelper/generated/spaln/dh_installchangelogs.dch.trimmed debian/spaln/usr/share/doc/spaln/changelog.Debian dh_installman -O--sourcedirectory=src install -m0755 -d debian/spaln/usr/share/man/man1/ install -p -m0644 ./sortgrcd.1 debian/spaln/usr/share/man/man1/sortgrcd.1 install -m0755 -d debian/spaln/usr/share/man/man1/ install -p -m0644 ./spaln.1 debian/spaln/usr/share/man/man1/spaln.1 man-recode --to-code UTF-8 --suffix .dh-new debian/spaln/usr/share/man/man1/sortgrcd.1 man-recode --to-code UTF-8 --suffix .dh-new debian/spaln/usr/share/man/man1/spaln.1 mv debian/spaln/usr/share/man/man1/spaln.1.dh-new debian/spaln/usr/share/man/man1/spaln.1 chmod 0644 -- debian/spaln/usr/share/man/man1/spaln.1 mv debian/spaln/usr/share/man/man1/sortgrcd.1.dh-new debian/spaln/usr/share/man/man1/sortgrcd.1 chmod 0644 -- debian/spaln/usr/share/man/man1/sortgrcd.1 dh_installsystemduser -O--sourcedirectory=src dh_perl -O--sourcedirectory=src mv debian/spaln-data.substvars.new debian/spaln-data.substvars dh_link -O--sourcedirectory=src dh_strip_nondeterminism -O--sourcedirectory=src Using 1707770215 as canonical time Normalizing debian/spaln-data/usr/share/spaln/seqdb/dictdisc.faa.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/spaln-data/usr/share/spaln/seqdb/dictdisc.cf.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/spaln-data/usr/share/spaln/seqdb/dictdisc_g.gf.gz using File::StripNondeterminism::handlers::gzip dh_compress -O--sourcedirectory=src cd debian/spaln cd debian/spaln-data chmod a-x usr/share/doc/spaln-data/changelog.Debian chmod a-x usr/share/doc/spaln/README.md usr/share/doc/spaln/changelog.Debian usr/share/man/man1/sortgrcd.1 usr/share/man/man1/spaln.1 gzip -9nf usr/share/doc/spaln-data/changelog.Debian gzip -9nf usr/share/doc/spaln/README.md usr/share/doc/spaln/changelog.Debian usr/share/man/man1/sortgrcd.1 usr/share/man/man1/spaln.1 cd '/build/reproducible-path/spaln-3.0.2+dfsg' cd '/build/reproducible-path/spaln-3.0.2+dfsg' dh_fixperms -O--sourcedirectory=src find debian/spaln ! -type l -a -true -a -true -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s find debian/spaln-data ! -type l -a -true -a -true -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s find debian/spaln/usr/share/doc -type f -a -true -a ! -regex 'debian/spaln/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644 find debian/spaln/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 find debian/spaln/usr/share/man -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/spaln -type f \( -name '*.so.*' -o -name '*.so' -o -name '*.la' -o -name '*.a' -o -name '*.js' -o -name '*.css' -o -name '*.scss' -o -name '*.sass' -o -name '*.jpeg' -o -name '*.jpg' -o -name '*.png' -o -name '*.gif' -o -name '*.cmxs' -o -name '*.node' \) -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/spaln/usr/bin -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod a+x find debian/spaln-data/usr/share/doc -type f -a -true -a ! -regex 'debian/spaln-data/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644 find debian/spaln-data/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 find debian/spaln-data -type f \( -name '*.so.*' -o -name '*.so' -o -name '*.la' -o -name '*.a' -o -name '*.js' -o -name '*.css' -o -name '*.scss' -o -name '*.sass' -o -name '*.jpeg' -o -name '*.jpg' -o -name '*.png' -o -name '*.gif' -o -name '*.cmxs' -o -name '*.node' \) -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 dh_missing -O--sourcedirectory=src dh_dwz -a -O--sourcedirectory=src install -m0755 -d debian/spaln/usr/lib/debug/.dwz/x86_64-linux-gnu dwz -mdebian/spaln/usr/lib/debug/.dwz/x86_64-linux-gnu/spaln.debug -M/usr/lib/debug/.dwz/x86_64-linux-gnu/spaln.debug -- debian/spaln/usr/bin/compild debian/spaln/usr/bin/decompild debian/spaln/usr/bin/dvn debian/spaln/usr/bin/exinpot debian/spaln/usr/bin/fitild debian/spaln/usr/bin/kmers debian/spaln/usr/bin/makdbs debian/spaln/usr/bin/makmdm debian/spaln/usr/bin/npssm debian/spaln/usr/bin/plotild debian/spaln/usr/bin/rdn debian/spaln/usr/bin/sortgrcd debian/spaln/usr/bin/spaln debian/spaln/usr/bin/utn objcopy --compress-debug-sections debian/spaln/usr/lib/debug/.dwz/x86_64-linux-gnu/spaln.debug chmod 0644 -- debian/spaln/usr/lib/debug/.dwz/x86_64-linux-gnu/spaln.debug dh_strip -a -O--sourcedirectory=src install -m0755 -d debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/8e objcopy --only-keep-debug --compress-debug-sections debian/spaln/usr/bin/decompild debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/8e/bb3be747acc125665534a61da5ce123a2868ee.debug chmod 0644 -- debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/8e/bb3be747acc125665534a61da5ce123a2868ee.debug strip --remove-section=.comment --remove-section=.note debian/spaln/usr/bin/decompild objcopy --add-gnu-debuglink debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/8e/bb3be747acc125665534a61da5ce123a2868ee.debug debian/spaln/usr/bin/decompild install -m0755 -d debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/51 objcopy --only-keep-debug --compress-debug-sections debian/spaln/usr/bin/sortgrcd debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/51/e0933efbd67860080412e11109152359be9e6c.debug chmod 0644 -- debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/51/e0933efbd67860080412e11109152359be9e6c.debug strip --remove-section=.comment --remove-section=.note debian/spaln/usr/bin/sortgrcd objcopy --add-gnu-debuglink debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/51/e0933efbd67860080412e11109152359be9e6c.debug debian/spaln/usr/bin/sortgrcd install -m0755 -d debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/4b objcopy --only-keep-debug --compress-debug-sections debian/spaln/usr/bin/spaln debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/4b/28624680981e068f327a5b76222e57c27af7eb.debug chmod 0644 -- debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/4b/28624680981e068f327a5b76222e57c27af7eb.debug strip --remove-section=.comment --remove-section=.note debian/spaln/usr/bin/spaln objcopy --add-gnu-debuglink debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/4b/28624680981e068f327a5b76222e57c27af7eb.debug debian/spaln/usr/bin/spaln install -m0755 -d debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/37 objcopy --only-keep-debug --compress-debug-sections debian/spaln/usr/bin/rdn debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/37/38c2274380a836c5a8b2cc3e0ab8a799e4dd46.debug chmod 0644 -- debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/37/38c2274380a836c5a8b2cc3e0ab8a799e4dd46.debug strip --remove-section=.comment --remove-section=.note debian/spaln/usr/bin/rdn objcopy --add-gnu-debuglink debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/37/38c2274380a836c5a8b2cc3e0ab8a799e4dd46.debug debian/spaln/usr/bin/rdn install -m0755 -d debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/61 objcopy --only-keep-debug --compress-debug-sections debian/spaln/usr/bin/npssm debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/61/d04921b830808f190684eb71427ba39110b1e9.debug chmod 0644 -- debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/61/d04921b830808f190684eb71427ba39110b1e9.debug strip --remove-section=.comment --remove-section=.note debian/spaln/usr/bin/npssm objcopy --add-gnu-debuglink debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/61/d04921b830808f190684eb71427ba39110b1e9.debug debian/spaln/usr/bin/npssm install -m0755 -d debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/29 objcopy --only-keep-debug --compress-debug-sections debian/spaln/usr/bin/makmdm debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/29/d99a14fea223f4d2582e3d6d5c289d00a8932b.debug chmod 0644 -- debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/29/d99a14fea223f4d2582e3d6d5c289d00a8932b.debug strip --remove-section=.comment --remove-section=.note debian/spaln/usr/bin/makmdm objcopy --add-gnu-debuglink debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/29/d99a14fea223f4d2582e3d6d5c289d00a8932b.debug debian/spaln/usr/bin/makmdm install -m0755 -d debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/75 objcopy --only-keep-debug --compress-debug-sections debian/spaln/usr/bin/dvn debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/75/cbf4ed37cfa0ba7feced9e3cae5ee72352bdd9.debug chmod 0644 -- debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/75/cbf4ed37cfa0ba7feced9e3cae5ee72352bdd9.debug strip --remove-section=.comment --remove-section=.note debian/spaln/usr/bin/dvn objcopy --add-gnu-debuglink debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/75/cbf4ed37cfa0ba7feced9e3cae5ee72352bdd9.debug debian/spaln/usr/bin/dvn install -m0755 -d debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/b6 objcopy --only-keep-debug --compress-debug-sections debian/spaln/usr/bin/fitild debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/b6/3de20d098226a3bd3da4410e00cac79cb6de48.debug chmod 0644 -- debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/b6/3de20d098226a3bd3da4410e00cac79cb6de48.debug strip --remove-section=.comment --remove-section=.note debian/spaln/usr/bin/fitild objcopy --add-gnu-debuglink debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/b6/3de20d098226a3bd3da4410e00cac79cb6de48.debug debian/spaln/usr/bin/fitild install -m0755 -d debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/4d objcopy --only-keep-debug --compress-debug-sections debian/spaln/usr/bin/compild debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/4d/aafcfc8dc3ddca15a7c2c2dab72b9f16f0f44b.debug chmod 0644 -- debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/4d/aafcfc8dc3ddca15a7c2c2dab72b9f16f0f44b.debug strip --remove-section=.comment --remove-section=.note debian/spaln/usr/bin/compild objcopy --add-gnu-debuglink debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/4d/aafcfc8dc3ddca15a7c2c2dab72b9f16f0f44b.debug debian/spaln/usr/bin/compild install -m0755 -d debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/03 objcopy --only-keep-debug --compress-debug-sections debian/spaln/usr/bin/plotild debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/03/441782c06c568cedfb72f489642bd5facfb234.debug chmod 0644 -- debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/03/441782c06c568cedfb72f489642bd5facfb234.debug strip --remove-section=.comment --remove-section=.note debian/spaln/usr/bin/plotild objcopy --add-gnu-debuglink debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/03/441782c06c568cedfb72f489642bd5facfb234.debug debian/spaln/usr/bin/plotild install -m0755 -d debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/1f objcopy --only-keep-debug --compress-debug-sections debian/spaln/usr/bin/exinpot debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/1f/20c684542531d643099ab09a4b159566270385.debug chmod 0644 -- debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/1f/20c684542531d643099ab09a4b159566270385.debug strip --remove-section=.comment --remove-section=.note debian/spaln/usr/bin/exinpot objcopy --add-gnu-debuglink debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/1f/20c684542531d643099ab09a4b159566270385.debug debian/spaln/usr/bin/exinpot install -m0755 -d debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/e0 objcopy --only-keep-debug --compress-debug-sections debian/spaln/usr/bin/kmers debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/e0/58c2ac7ff3025586832397aff07603a29f5633.debug chmod 0644 -- debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/e0/58c2ac7ff3025586832397aff07603a29f5633.debug strip --remove-section=.comment --remove-section=.note debian/spaln/usr/bin/kmers objcopy --add-gnu-debuglink debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/e0/58c2ac7ff3025586832397aff07603a29f5633.debug debian/spaln/usr/bin/kmers install -m0755 -d debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/39 objcopy --only-keep-debug --compress-debug-sections debian/spaln/usr/bin/utn debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/39/1a9ca55db6aca7b70f77ac3cf84cc4962d7b55.debug chmod 0644 -- debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/39/1a9ca55db6aca7b70f77ac3cf84cc4962d7b55.debug strip --remove-section=.comment --remove-section=.note debian/spaln/usr/bin/utn objcopy --add-gnu-debuglink debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/39/1a9ca55db6aca7b70f77ac3cf84cc4962d7b55.debug debian/spaln/usr/bin/utn install -m0755 -d debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/73 objcopy --only-keep-debug --compress-debug-sections debian/spaln/usr/bin/makdbs debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/73/40bc199a5f8e10a0be882a00e00ba63b2bba6c.debug chmod 0644 -- debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/73/40bc199a5f8e10a0be882a00e00ba63b2bba6c.debug strip --remove-section=.comment --remove-section=.note debian/spaln/usr/bin/makdbs objcopy --add-gnu-debuglink debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/73/40bc199a5f8e10a0be882a00e00ba63b2bba6c.debug debian/spaln/usr/bin/makdbs install -m0755 -d debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.dwz cp --reflink=auto -a debian/spaln/usr/lib/debug/.dwz/x86_64-linux-gnu debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.dwz rm -fr debian/spaln/usr/lib/debug/.dwz rmdir -p --ignore-fail-on-non-empty debian/spaln/usr/lib/debug install -m0755 -d debian/.debhelper/spaln/dbgsym-root/usr/share/doc ln -s spaln debian/.debhelper/spaln/dbgsym-root/usr/share/doc/spaln-dbgsym install -m0755 -d debian/.debhelper/spaln dh_makeshlibs -a -O--sourcedirectory=src rm -f debian/spaln/DEBIAN/shlibs dh_shlibdeps -a -O--sourcedirectory=src install -m0755 -d debian/spaln/DEBIAN dpkg-shlibdeps -Tdebian/spaln.substvars debian/spaln/usr/bin/decompild debian/spaln/usr/bin/sortgrcd debian/spaln/usr/bin/spaln debian/spaln/usr/bin/rdn debian/spaln/usr/bin/npssm debian/spaln/usr/bin/makmdm debian/spaln/usr/bin/dvn debian/spaln/usr/bin/fitild debian/spaln/usr/bin/compild debian/spaln/usr/bin/plotild debian/spaln/usr/bin/exinpot debian/spaln/usr/bin/kmers debian/spaln/usr/bin/utn debian/spaln/usr/bin/makdbs dh_installdeb -O--sourcedirectory=src install -m0755 -d debian/spaln/DEBIAN install -m0755 -d debian/spaln-data/DEBIAN dh_gencontrol -O--sourcedirectory=src install -m0755 -d debian/spaln-data/DEBIAN echo misc:Depends= >> debian/spaln-data.substvars echo misc:Pre-Depends= >> debian/spaln-data.substvars dpkg-gencontrol -pspaln-data -ldebian/changelog -Tdebian/spaln-data.substvars -cdebian/control -Pdebian/spaln-data install -m0755 -d debian/spaln/DEBIAN echo misc:Depends= >> debian/spaln.substvars echo misc:Pre-Depends= >> debian/spaln.substvars install -m0755 -d debian/.debhelper/spaln/dbgsym-root/DEBIAN dpkg-gencontrol -pspaln -ldebian/changelog -Tdebian/spaln.substvars -cdebian/control -Pdebian/.debhelper/spaln/dbgsym-root -UPre-Depends -URecommends -USuggests -UEnhances -UProvides -UEssential -UConflicts -DPriority=optional -UHomepage -UImportant -DAuto-Built-Package=debug-symbols -UProtected -UBuilt-Using -UStatic-Built-Using -DPackage=spaln-dbgsym -DDepends="spaln (= \${binary:Version})" -DDescription="debug symbols for spaln" -DBuild-Ids="03441782c06c568cedfb72f489642bd5facfb234 1f20c684542531d643099ab09a4b159566270385 29d99a14fea223f4d2582e3d6d5c289d00a8932b 3738c2274380a836c5a8b2cc3e0ab8a799e4dd46 391a9ca55db6aca7b70f77ac3cf84cc4962d7b55 4b28624680981e068f327a5b76222e57c27af7eb 4daafcfc8dc3ddca15a7c2c2dab72b9f16f0f44b 51e0933efbd67860080412e11109152359be9e6c 61d04921b830808f190684eb71427ba39110b1e9 7340bc199a5f8e10a0be882a00e00ba63b2bba6c 75cbf4ed37cfa0ba7feced9e3cae5ee72352bdd9 8ebb3be747acc125665534a61da5ce123a2868ee b63de20d098226a3bd3da4410e00cac79cb6de48 e058c2ac7ff3025586832397aff07603a29f5633" -DSection=debug -UMulti-Arch -UReplaces -UBreaks chmod 0644 -- debian/.debhelper/spaln/dbgsym-root/DEBIAN/control dpkg-gencontrol -pspaln -ldebian/changelog -Tdebian/spaln.substvars -cdebian/control -Pdebian/spaln dpkg-gencontrol: warning: package spaln-data: substitution variable ${perl:Depends} unused, but is defined chmod 0644 -- debian/spaln-data/DEBIAN/control chmod 0644 -- debian/spaln/DEBIAN/control dh_md5sums -O--sourcedirectory=src install -m0755 -d debian/spaln-data/DEBIAN install -m0755 -d debian/spaln/DEBIAN cd debian/spaln >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums cd debian/spaln-data >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums chmod 0644 -- debian/spaln/DEBIAN/md5sums install -m0755 -d debian/.debhelper/spaln/dbgsym-root/DEBIAN cd debian/.debhelper/spaln/dbgsym-root >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums chmod 0644 -- debian/.debhelper/spaln/dbgsym-root/DEBIAN/md5sums chmod 0644 -- debian/spaln-data/DEBIAN/md5sums dh_builddeb -O--sourcedirectory=src dpkg-deb --root-owner-group --build debian/spaln .. dpkg-deb --root-owner-group --build debian/.debhelper/spaln/dbgsym-root .. dpkg-deb --root-owner-group --build debian/spaln-data .. dpkg-deb: building package 'spaln' in '../spaln_3.0.2+dfsg-2_amd64.deb'. dpkg-deb: building package 'spaln-dbgsym' in '../spaln-dbgsym_3.0.2+dfsg-2_amd64.deb'. dpkg-deb: building package 'spaln-data' in '../spaln-data_3.0.2+dfsg-2_all.deb'. dpkg-genbuildinfo --build=binary -O../spaln_3.0.2+dfsg-2_amd64.buildinfo dpkg-genchanges --build=binary -O../spaln_3.0.2+dfsg-2_amd64.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/863081 and its subdirectories I: Current time: Fri Dec 4 04:54:20 -12 2026 I: pbuilder-time-stamp: 1796403260 Fri Dec 4 16:54:20 UTC 2026 I: Signing ./b1/spaln_3.0.2+dfsg-2_amd64.buildinfo as spaln_3.0.2+dfsg-2_amd64.buildinfo.asc Fri Dec 4 16:54:20 UTC 2026 I: Signed ./b1/spaln_3.0.2+dfsg-2_amd64.buildinfo as ./b1/spaln_3.0.2+dfsg-2_amd64.buildinfo.asc Fri Dec 4 16:54:20 UTC 2026 - build #1 for spaln/unstable/amd64 on ionos15-amd64 done. Starting cleanup. All cleanup done. Fri Dec 4 16:54:20 UTC 2026 - reproducible_build.sh stopped running as /tmp/jenkins-script-1Xl0AaPt, removing. /srv/reproducible-results/rbuild-debian/r-b-build.1WvqLAiB: total 16 drwxrwxr-x 2 jenkins jenkins 4096 Nov 1 10:31 b1 drwxrwxr-x 2 jenkins jenkins 4096 Nov 1 10:29 b2 -rw------- 1 jenkins jenkins 3338 Nov 1 10:29 rbuildlog.MoW1HZJ -rw-rw-r-- 1 jenkins jenkins 2224 Feb 12 2024 spaln_3.0.2+dfsg-2.dsc /srv/reproducible-results/rbuild-debian/r-b-build.1WvqLAiB/b1: total 23172 -rw-r--r-- 1 jenkins jenkins 68077 Nov 1 10:31 build.log -rw-r--r-- 1 jenkins jenkins 19478864 Nov 1 10:31 spaln-data_3.0.2+dfsg-2_all.deb -rw-r--r-- 1 jenkins jenkins 3554892 Nov 1 10:31 spaln-dbgsym_3.0.2+dfsg-2_amd64.deb -rw-r--r-- 1 jenkins jenkins 6124 Nov 1 10:31 spaln_3.0.2+dfsg-2.debian.tar.xz -rw-r--r-- 1 jenkins jenkins 2224 Nov 1 10:31 spaln_3.0.2+dfsg-2.dsc -rw-r--r-- 1 jenkins jenkins 5197 Nov 1 10:31 spaln_3.0.2+dfsg-2_amd64.buildinfo -rw-rw-r-- 1 jenkins jenkins 6079 Nov 1 10:31 spaln_3.0.2+dfsg-2_amd64.buildinfo.asc -rw-r--r-- 1 jenkins jenkins 1771 Nov 1 10:31 spaln_3.0.2+dfsg-2_amd64.changes -rw-r--r-- 1 jenkins jenkins 581956 Nov 1 10:31 spaln_3.0.2+dfsg-2_amd64.deb -rw-r--r-- 1 jenkins jenkins 1258 Nov 1 10:31 spaln_3.0.2+dfsg-2_source.changes /srv/reproducible-results/rbuild-debian/r-b-build.1WvqLAiB/b2: total 0 Sat Nov 1 10:31:21 UTC 2025 I: Deleting $TMPDIR on ionos15-amd64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Fri Dec 4 04:52:28 -12 2026 I: pbuilder-time-stamp: 1796403148 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-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 [spaln_3.0.2+dfsg-2.dsc] I: copying [./spaln_3.0.2+dfsg.orig.tar.xz] I: copying [./spaln_3.0.2+dfsg-2.debian.tar.xz] I: Extracting source dpkg-source: warning: cannot verify inline signature for ./spaln_3.0.2+dfsg-2.dsc: no acceptable signature found dpkg-source: info: extracting spaln in spaln-3.0.2+dfsg dpkg-source: info: unpacking spaln_3.0.2+dfsg.orig.tar.xz dpkg-source: info: unpacking spaln_3.0.2+dfsg-2.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying hardening.patch dpkg-source: info: applying portability.patch dpkg-source: info: applying add_path_to_testscript.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/863081/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build/reproducible-path' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='amd64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=42 ' DISTRIBUTION='unstable' HOME='/root' HOST_ARCH='amd64' IFS=' ' INVOCATION_ID='999d2a0493744673860098011e341305' 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='863081' 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.1WvqLAiB/pbuilderrc_Ld1X --distribution unstable --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.1WvqLAiB/b1 --logfile b1/build.log spaln_3.0.2+dfsg-2.dsc' SUDO_GID='111' SUDO_HOME='/var/lib/jenkins' SUDO_UID='106' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://213.165.73.152:3128' I: uname -a Linux ionos15-amd64 6.12.48+deb13-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.12.48-1 (2025-09-20) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Aug 10 2025 /bin -> usr/bin I: user script /srv/workspace/pbuilder/863081/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: amd64 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13), zlib1g-dev, libgsl-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 ... 19862 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on zlib1g-dev; however: Package zlib1g-dev is not installed. pbuilder-satisfydepends-dummy depends on libgsl-dev; however: Package libgsl-dev is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libdebhelper-perl{a} libelf1t64{a} libfile-stripnondeterminism-perl{a} libgsl-dev{a} libgsl28{a} libgslcblas0{a} libmagic-mgc{a} libmagic1t64{a} libpipeline1{a} libtool{a} libuchardet0{a} libunistring5{a} libxml2-16{a} m4{a} man-db{a} po-debconf{a} sensible-utils{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: curl libarchive-cpio-perl libltdl-dev libmail-sendmail-perl lynx wget 0 packages upgraded, 33 newly installed, 0 to remove and 0 not upgraded. Need to get 14.7 MB of archives. After unpacking 56.6 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian unstable/main amd64 sensible-utils all 0.0.26 [27.0 kB] Get: 2 http://deb.debian.org/debian unstable/main amd64 libmagic-mgc amd64 1:5.46-5 [338 kB] Get: 3 http://deb.debian.org/debian unstable/main amd64 libmagic1t64 amd64 1:5.46-5 [109 kB] Get: 4 http://deb.debian.org/debian unstable/main amd64 file amd64 1:5.46-5 [43.6 kB] Get: 5 http://deb.debian.org/debian unstable/main amd64 gettext-base amd64 0.23.1-2+b1 [244 kB] Get: 6 http://deb.debian.org/debian unstable/main amd64 libuchardet0 amd64 0.0.8-2 [68.5 kB] Get: 7 http://deb.debian.org/debian unstable/main amd64 groff-base amd64 1.23.0-9 [1187 kB] Get: 8 http://deb.debian.org/debian unstable/main amd64 bsdextrautils amd64 2.41.2-4 [98.5 kB] Get: 9 http://deb.debian.org/debian unstable/main amd64 libpipeline1 amd64 1.5.8-1 [42.0 kB] Get: 10 http://deb.debian.org/debian unstable/main amd64 man-db amd64 2.13.1-1 [1469 kB] Get: 11 http://deb.debian.org/debian unstable/main amd64 m4 amd64 1.4.20-2 [325 kB] Get: 12 http://deb.debian.org/debian unstable/main amd64 autoconf all 2.72-3.1 [494 kB] Get: 13 http://deb.debian.org/debian unstable/main amd64 autotools-dev all 20240727.1 [60.2 kB] Get: 14 http://deb.debian.org/debian unstable/main amd64 automake all 1:1.18.1-2 [877 kB] Get: 15 http://deb.debian.org/debian unstable/main amd64 autopoint all 0.23.1-2 [770 kB] Get: 16 http://deb.debian.org/debian unstable/main amd64 libdebhelper-perl all 13.28 [92.4 kB] Get: 17 http://deb.debian.org/debian unstable/main amd64 libtool all 2.5.4-7 [540 kB] Get: 18 http://deb.debian.org/debian unstable/main amd64 dh-autoreconf all 21 [12.2 kB] Get: 19 http://deb.debian.org/debian unstable/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 20 http://deb.debian.org/debian unstable/main amd64 libfile-stripnondeterminism-perl all 1.15.0-1 [19.9 kB] Get: 21 http://deb.debian.org/debian unstable/main amd64 dh-strip-nondeterminism all 1.15.0-1 [8812 B] Get: 22 http://deb.debian.org/debian unstable/main amd64 libelf1t64 amd64 0.194-1 [185 kB] Get: 23 http://deb.debian.org/debian unstable/main amd64 dwz amd64 0.16-2 [108 kB] Get: 24 http://deb.debian.org/debian unstable/main amd64 libunistring5 amd64 1.3-2 [477 kB] Get: 25 http://deb.debian.org/debian unstable/main amd64 libxml2-16 amd64 2.15.1+dfsg-0.3 [640 kB] Get: 26 http://deb.debian.org/debian unstable/main amd64 gettext amd64 0.23.1-2+b1 [1680 kB] Get: 27 http://deb.debian.org/debian unstable/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 28 http://deb.debian.org/debian unstable/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 29 http://deb.debian.org/debian unstable/main amd64 debhelper all 13.28 [941 kB] Get: 30 http://deb.debian.org/debian unstable/main amd64 libgslcblas0 amd64 2.8+dfsg-5.1 [137 kB] Get: 31 http://deb.debian.org/debian unstable/main amd64 libgsl28 amd64 2.8+dfsg-5.1 [1068 kB] Get: 32 http://deb.debian.org/debian unstable/main amd64 libgsl-dev amd64 2.8+dfsg-5.1 [1336 kB] Get: 33 http://deb.debian.org/debian unstable/main amd64 zlib1g-dev amd64 1:1.3.dfsg+really1.3.1-1+b1 [920 kB] Fetched 14.7 MB in 0s (104 MB/s) Preconfiguring packages ... Selecting previously unselected package sensible-utils. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19862 files and directories currently installed.) Preparing to unpack .../00-sensible-utils_0.0.26_all.deb ... Unpacking sensible-utils (0.0.26) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../01-libmagic-mgc_1%3a5.46-5_amd64.deb ... Unpacking libmagic-mgc (1:5.46-5) ... Selecting previously unselected package libmagic1t64:amd64. Preparing to unpack .../02-libmagic1t64_1%3a5.46-5_amd64.deb ... Unpacking libmagic1t64:amd64 (1:5.46-5) ... Selecting previously unselected package file. Preparing to unpack .../03-file_1%3a5.46-5_amd64.deb ... Unpacking file (1:5.46-5) ... Selecting previously unselected package gettext-base. Preparing to unpack .../04-gettext-base_0.23.1-2+b1_amd64.deb ... Unpacking gettext-base (0.23.1-2+b1) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../05-libuchardet0_0.0.8-2_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.8-2) ... Selecting previously unselected package groff-base. Preparing to unpack .../06-groff-base_1.23.0-9_amd64.deb ... Unpacking groff-base (1.23.0-9) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../07-bsdextrautils_2.41.2-4_amd64.deb ... Unpacking bsdextrautils (2.41.2-4) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../08-libpipeline1_1.5.8-1_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.8-1) ... Selecting previously unselected package man-db. Preparing to unpack .../09-man-db_2.13.1-1_amd64.deb ... Unpacking man-db (2.13.1-1) ... Selecting previously unselected package m4. Preparing to unpack .../10-m4_1.4.20-2_amd64.deb ... Unpacking m4 (1.4.20-2) ... Selecting previously unselected package autoconf. Preparing to unpack .../11-autoconf_2.72-3.1_all.deb ... Unpacking autoconf (2.72-3.1) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../12-autotools-dev_20240727.1_all.deb ... Unpacking autotools-dev (20240727.1) ... Selecting previously unselected package automake. Preparing to unpack .../13-automake_1%3a1.18.1-2_all.deb ... Unpacking automake (1:1.18.1-2) ... Selecting previously unselected package autopoint. Preparing to unpack .../14-autopoint_0.23.1-2_all.deb ... Unpacking autopoint (0.23.1-2) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../15-libdebhelper-perl_13.28_all.deb ... Unpacking libdebhelper-perl (13.28) ... Selecting previously unselected package libtool. Preparing to unpack .../16-libtool_2.5.4-7_all.deb ... Unpacking libtool (2.5.4-7) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../17-dh-autoreconf_21_all.deb ... Unpacking dh-autoreconf (21) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../18-libarchive-zip-perl_1.68-1_all.deb ... Unpacking libarchive-zip-perl (1.68-1) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../19-libfile-stripnondeterminism-perl_1.15.0-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.15.0-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../20-dh-strip-nondeterminism_1.15.0-1_all.deb ... Unpacking dh-strip-nondeterminism (1.15.0-1) ... Selecting previously unselected package libelf1t64:amd64. Preparing to unpack .../21-libelf1t64_0.194-1_amd64.deb ... Unpacking libelf1t64:amd64 (0.194-1) ... Selecting previously unselected package dwz. Preparing to unpack .../22-dwz_0.16-2_amd64.deb ... Unpacking dwz (0.16-2) ... Selecting previously unselected package libunistring5:amd64. Preparing to unpack .../23-libunistring5_1.3-2_amd64.deb ... Unpacking libunistring5:amd64 (1.3-2) ... Selecting previously unselected package libxml2-16:amd64. Preparing to unpack .../24-libxml2-16_2.15.1+dfsg-0.3_amd64.deb ... Unpacking libxml2-16:amd64 (2.15.1+dfsg-0.3) ... Selecting previously unselected package gettext. Preparing to unpack .../25-gettext_0.23.1-2+b1_amd64.deb ... Unpacking gettext (0.23.1-2+b1) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../26-intltool-debian_0.35.0+20060710.6_all.deb ... Unpacking intltool-debian (0.35.0+20060710.6) ... Selecting previously unselected package po-debconf. Preparing to unpack .../27-po-debconf_1.0.21+nmu1_all.deb ... Unpacking po-debconf (1.0.21+nmu1) ... Selecting previously unselected package debhelper. Preparing to unpack .../28-debhelper_13.28_all.deb ... Unpacking debhelper (13.28) ... Selecting previously unselected package libgslcblas0:amd64. Preparing to unpack .../29-libgslcblas0_2.8+dfsg-5.1_amd64.deb ... Unpacking libgslcblas0:amd64 (2.8+dfsg-5.1) ... Selecting previously unselected package libgsl28:amd64. Preparing to unpack .../30-libgsl28_2.8+dfsg-5.1_amd64.deb ... Unpacking libgsl28:amd64 (2.8+dfsg-5.1) ... Selecting previously unselected package libgsl-dev. Preparing to unpack .../31-libgsl-dev_2.8+dfsg-5.1_amd64.deb ... Unpacking libgsl-dev (2.8+dfsg-5.1) ... Selecting previously unselected package zlib1g-dev:amd64. Preparing to unpack .../32-zlib1g-dev_1%3a1.3.dfsg+really1.3.1-1+b1_amd64.deb ... Unpacking zlib1g-dev:amd64 (1:1.3.dfsg+really1.3.1-1+b1) ... Setting up libpipeline1:amd64 (1.5.8-1) ... Setting up bsdextrautils (2.41.2-4) ... Setting up libgslcblas0:amd64 (2.8+dfsg-5.1) ... Setting up libmagic-mgc (1:5.46-5) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libxml2-16:amd64 (2.15.1+dfsg-0.3) ... Setting up libdebhelper-perl (13.28) ... Setting up libmagic1t64:amd64 (1:5.46-5) ... Setting up gettext-base (0.23.1-2+b1) ... Setting up m4 (1.4.20-2) ... Setting up file (1:5.46-5) ... Setting up libelf1t64:amd64 (0.194-1) ... Setting up autotools-dev (20240727.1) ... Setting up libunistring5:amd64 (1.3-2) ... Setting up autopoint (0.23.1-2) ... Setting up autoconf (2.72-3.1) ... Setting up zlib1g-dev:amd64 (1:1.3.dfsg+really1.3.1-1+b1) ... Setting up dwz (0.16-2) ... Setting up sensible-utils (0.0.26) ... Setting up libuchardet0:amd64 (0.0.8-2) ... Setting up libgsl28:amd64 (2.8+dfsg-5.1) ... Setting up automake (1:1.18.1-2) ... update-alternatives: using /usr/bin/automake-1.18 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.15.0-1) ... Setting up gettext (0.23.1-2+b1) ... Setting up libgsl-dev (2.8+dfsg-5.1) ... Setting up libtool (2.5.4-7) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (21) ... Setting up dh-strip-nondeterminism (1.15.0-1) ... Setting up groff-base (1.23.0-9) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up man-db (2.13.1-1) ... Not building database; man-db/auto-update is not 'true'. Setting up debhelper (13.28) ... Processing triggers for libc-bin (2.41-12) ... Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package I: Running cd /build/reproducible-path/spaln-3.0.2+dfsg/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../spaln_3.0.2+dfsg-2_source.changes dpkg-buildpackage: info: source package spaln dpkg-buildpackage: info: source version 3.0.2+dfsg-2 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean --sourcedirectory=src debian/rules override_dh_auto_clean make[1]: Entering directory '/build/reproducible-path/spaln-3.0.2+dfsg' dh_auto_clean || true rm -f src/dbs.h src/iolib.h src/*.o src/*.a src/Makefile make[1]: Leaving directory '/build/reproducible-path/spaln-3.0.2+dfsg' dh_autoreconf_clean -O--sourcedirectory=src dh_clean -O--sourcedirectory=src rm -f debian/debhelper-build-stamp rm -rf debian/.debhelper/ rm -f -- debian/spaln.substvars debian/spaln-data.substvars debian/files rm -fr -- debian/spaln/ debian/tmp/ debian/spaln-data/ find . \( \( \ \( -path .\*/.git -o -path .\*/.svn -o -path .\*/.bzr -o -path .\*/.hg -o -path .\*/CVS -o -path .\*/.pc -o -path .\*/_darcs \) -prune -o -type f -a \ \( -name '#*#' -o -name '.*~' -o -name '*~' -o -name DEADJOE \ -o -name '*.orig' -o -name '*.rej' -o -name '*.bak' \ -o -name '.*.orig' -o -name .*.rej -o -name '.SUMS' \ -o -name TAGS -o \( -path '*/.deps/*' -a -name '*.P' \) \ \) -exec rm -f {} + \) -o \ \( -type d -a \( -name autom4te.cache -o -name __pycache__ \) -prune -exec rm -rf {} + \) \) debian/rules binary dh binary --sourcedirectory=src dh_update_autotools_config -O--sourcedirectory=src dh_autoreconf -O--sourcedirectory=src debian/rules override_dh_auto_configure make[1]: Entering directory '/build/reproducible-path/spaln-3.0.2+dfsg' # the configure script is not originated from autoconf and needs to be manually called cd src && AR="x86_64-linux-gnu-ar rc" exec_prefix=/usr/bin table_dir=/usr/share/spaln/table alndbs_dir=/usr/share/spaln/seqdb ./configure OK, CXX=x86_64-linux-gnu-g++ CFLAGS=-g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic binaries install to /usr/bin tables install to /usr/share/spaln/table alndbs install to /usr/share/spaln/seqdb wrote Makefile wrote files OK. try make and make install. good luck! make[1]: Leaving directory '/build/reproducible-path/spaln-3.0.2+dfsg' debian/rules override_dh_auto_build make[1]: Entering directory '/build/reproducible-path/spaln-3.0.2+dfsg' dh_auto_build -- table_dir=/usr/share/spaln/table alndbs_dir=/usr/share/spaln/seqdb exec_prefix=/usr/bin cd src && make -j42 table_dir=/usr/share/spaln/table alndbs_dir=/usr/share/spaln/seqdb exec_prefix=/usr/bin make[2]: Entering directory '/build/reproducible-path/spaln-3.0.2+dfsg/src' x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c blksrc.cc x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c aln2.cc x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c dbs.cc x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c gaps.cc x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c codepot.cc x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c divseq.cc x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c gsinfo.cc x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c fwd2b1.cc x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c fwd2d1.cc x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c fwd2h1.cc x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c fwd2s1.cc cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c bitpat.cc x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c eijunc.cc cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c seq.cc x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c simmtx.cc cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c sqpr.cc cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c utilseq.cc cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c vmf.cc cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c wln.cc cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c boyer_moore.cc cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c clib.cc cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c iolib.cc cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c mfile.cc cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c sets.cc x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c supprime.cc cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ seq.cc: In function 'void reportseq(Seq**, int)': seq.cc:483:50: warning: format '%p' expects argument of type 'void*', but argument 9 has type 'int*' [-Wformat=] 483 | printf("%d\t%d\t%d\t%d\t%d\t%d\t%p\t%p\n", i + 1, | ~^ | | | void* | %n 484 | sd->sid, sd->vrtl, sd->len, sd->area_, sd->did, sd->seq_, sd->lens); | ~~~~~~~~ | | | int* x86_64-linux-gnu-ar rc clib.a clib.o iolib.o mfile.o sets.o supprime.o x86_64-linux-gnu-ranlib clib.a x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -o makmdm makmdm.cc clib.a -lpthread -lm -lz -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ x86_64-linux-gnu-ar rc sblib.a aln2.o dbs.o gaps.o codepot.o divseq.o gsinfo.o \ fwd2b1.o fwd2d1.o fwd2h1.o fwd2s1.o bitpat.o eijunc.o \ seq.o simmtx.o sqpr.o utilseq.o vmf.o wln.o boyer_moore.o x86_64-linux-gnu-ranlib sblib.a x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -o sortgrcd sortgrcd.cc sblib.a clib.a -lpthread -lm -lz -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -o makdbs makdbs.cc sblib.a clib.a -lpthread -lm -lz -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -o spaln spaln.cc blksrc.o sblib.a clib.a -lpthread -lm -lz -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ sortgrcd.cc: In function 'int count_record(const char*, const char*, size_t)': sortgrcd.cc:999:25: warning: ISO C++ forbids variable length array 'buf' [-Wvla] 999 | char buf[rcdsize]; | ^~~ spaln.cc: In function 'blkaln.isra': spaln.cc:858:46: warning: argument 1 value '18446744073709551615' exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 858 | Gsinfo* GsI = new Gsinfo[nparalog + 1]; | ^ /usr/include/c++/15/new:140:26: note: in a call to allocation function 'operator new []' declared here 140 | _GLIBCXX_NODISCARD void* operator new[](std::size_t) | ^ In function 'match_2', inlined from 'spaln_job' at spaln.cc:1142:14: spaln.cc:764:46: warning: argument 1 value '18446744073709551615' exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 764 | Gsinfo* GsI = new Gsinfo[nparalog + 1]; | ^ /usr/include/c++/15/new: In function 'spaln_job': /usr/include/c++/15/new:140:26: note: in a call to allocation function 'operator new []' declared here 140 | _GLIBCXX_NODISCARD void* operator new[](std::size_t) | ^ make[2]: Leaving directory '/build/reproducible-path/spaln-3.0.2+dfsg/src' make[1]: Leaving directory '/build/reproducible-path/spaln-3.0.2+dfsg' dh_auto_test -O--sourcedirectory=src cd src && make -j42 test TESTSUITEFLAGS="-j42 --verbose" VERBOSE=1 make[1]: Entering directory '/build/reproducible-path/spaln-3.0.2+dfsg/src' x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c autocomp.cc x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c extcds.cc x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c montseq.cc x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c pattern.cc x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c resite.cc x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -o exinpot exinpot.cc sblib.a clib.a -lpthread -lm -lz x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -o kmers kmers.cc sblib.a clib.a -lpthread -lm -lz x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -o npssm npssm.cc sblib.a clib.a -lpthread -lm -lz x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c utn.cc x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c ildpdf.cc x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c decompild.cc x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c fitild.cc cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ x86_64-linux-gnu-ar rc ublib.a autocomp.o extcds.o \ montseq.o pattern.o resite.o x86_64-linux-gnu-ranlib ublib.a x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -o dvn dvn.cc ublib.a sblib.a clib.a -lpthread -lm -lz x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -o rdn rdn.cc ublib.a sblib.a clib.a -lpthread -lm -lz cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -o fitild -DMAIN fitild.cc ildpdf.o clib.a -lpthread -lm -lz \ -L/usr/local/lib -lm -lgsl -lgslcblas x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -o compild compild.cc ildpdf.o clib.a -lpthread -lm -lz -lm -lgsl -lgslcblas x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -o decompild decompild.o ildpdf.o fitild.o clib.a -lpthread -lm -lz -lgsl -lgslcblas x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -o plotild plotild.cc ildpdf.o clib.a -lpthread -lm -lz -lm -lgsl -lgslcblas cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ plotild.cc: In function 'getiprms': plotild.cc:136:49: warning: argument 1 value '18446744073709551615' exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 136 | IldPrm* ipprm = new IldPrm[nn + nprm + 1]; | ^ /usr/include/c++/15/new:140:26: note: in a call to allocation function 'operator new []' declared here 140 | _GLIBCXX_NODISCARD void* operator new[](std::size_t) | ^ x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -o utn utn.o ublib.a sblib.a clib.a -lpthread -lm -lz please make install before test make[1]: Leaving directory '/build/reproducible-path/spaln-3.0.2+dfsg/src' rm -fr -- /tmp/dh-xdg-rundir-xOFHeocr create-stamp debian/debhelper-build-stamp dh_testroot -O--sourcedirectory=src dh_prep -O--sourcedirectory=src rm -f -- debian/spaln.substvars debian/spaln-data.substvars rm -fr -- debian/.debhelper/generated/spaln/ debian/spaln/ debian/tmp/ debian/.debhelper/generated/spaln-data/ debian/spaln-data/ rm -f debian/spaln-data.debhelper.log debian/spaln.debhelper.log debian/rules override_dh_auto_install make[1]: Entering directory '/build/reproducible-path/spaln-3.0.2+dfsg' dh_auto_install -- table_dir=/usr/share/spaln/table alndbs_dir=/usr/share/spaln/seqdb exec_prefix=/usr/bin install -m0755 -d /build/reproducible-path/spaln-3.0.2\+dfsg/debian/tmp cd src && make -j42 install DESTDIR=/build/reproducible-path/spaln-3.0.2\+dfsg/debian/tmp AM_UPDATE_INFO_DIR=no table_dir=/usr/share/spaln/table alndbs_dir=/usr/share/spaln/seqdb exec_prefix=/usr/bin make[2]: Entering directory '/build/reproducible-path/spaln-3.0.2+dfsg/src' test -d /build/reproducible-path/spaln-3.0.2+dfsg/debian/tmp/usr/bin || mkdir -p /build/reproducible-path/spaln-3.0.2+dfsg/debian/tmp/usr/bin if [ -s spaln ]; then\ cp spaln sortgrcd makmdm makdbs /build/reproducible-path/spaln-3.0.2+dfsg/debian/tmp/usr/bin; \ fi if [ -s exinpot ]; then \ cp dvn exinpot kmers npssm rdn utn /build/reproducible-path/spaln-3.0.2+dfsg/debian/tmp/usr/bin; \ fi if [ -s fitild ]; then \ cp fitild compild decompild plotild /build/reproducible-path/spaln-3.0.2+dfsg/debian/tmp/usr/bin; \ fi test -d /build/reproducible-path/spaln-3.0.2+dfsg/debian/tmp/usr/share/spaln/table || mkdir -p /build/reproducible-path/spaln-3.0.2+dfsg/debian/tmp/usr/share/spaln/table ./makmdm /build/reproducible-path/spaln-3.0.2+dfsg/debian/tmp/usr/share/spaln/table 7.6862 5.1057 4.2546 5.1269 2.0279 4.1061 6.1820 7.4714 2.2983 5.2569 9.1111 5.9498 2.3414 4.0530 5.0532 6.8225 5.8518 1.4336 3.2303 6.6374 Pam = 0 Norl fact = 106.899 trace = 106.899 Pam = 10 Norl fact = 13.996 trace = 41.995 Pam = 20 Norl fact = 15.588 trace = 45.299 Pam = 30 Norl fact = 16.894 trace = 47.531 Pam = 40 Norl fact = 18.094 trace = 49.266 Pam = 50 Norl fact = 19.249 trace = 50.701 Pam = 60 Norl fact = 20.386 trace = 51.928 Pam = 70 Norl fact = 21.522 trace = 52.997 Pam = 80 Norl fact = 22.667 trace = 53.943 Pam = 90 Norl fact = 23.828 trace = 54.788 Pam = 100 Norl fact = 25.012 trace = 55.547 Pam = 110 Norl fact = 26.222 trace = 56.234 Pam = 120 Norl fact = 27.462 trace = 56.858 Pam = 130 Norl fact = 28.735 trace = 57.427 Pam = 140 Norl fact = 30.044 trace = 57.946 Pam = 150 Norl fact = 31.391 trace = 58.421 Pam = 160 Norl fact = 32.778 trace = 58.858 Pam = 170 Norl fact = 34.208 trace = 59.259 Pam = 180 Norl fact = 35.683 trace = 59.629 Pam = 190 Norl fact = 37.204 trace = 59.970 Pam = 200 Norl fact = 38.774 trace = 60.286 Pam = 210 Norl fact = 40.394 trace = 60.580 Pam = 220 Norl fact = 42.066 trace = 60.854 Pam = 230 Norl fact = 43.793 trace = 61.110 Pam = 240 Norl fact = 45.577 trace = 61.350 Pam = 250 Norl fact = 47.419 trace = 61.576 Pam = 260 Norl fact = 49.322 trace = 61.791 Pam = 270 Norl fact = 51.287 trace = 61.996 Pam = 280 Norl fact = 53.318 trace = 62.191 Pam = 290 Norl fact = 55.415 trace = 62.380 Pam = 300 Norl fact = 57.582 trace = 62.563 test -d /build/reproducible-path/spaln-3.0.2+dfsg/debian/tmp/usr/share/spaln/seqdb || mkdir -p /build/reproducible-path/spaln-3.0.2+dfsg/debian/tmp/usr/share/spaln/seqdb make[2]: Leaving directory '/build/reproducible-path/spaln-3.0.2+dfsg/src' make[1]: Leaving directory '/build/reproducible-path/spaln-3.0.2+dfsg' dh_install -O--sourcedirectory=src install -m0755 -d debian/spaln//usr cp --reflink=auto -a debian/tmp/usr/bin debian/spaln//usr/ install -m0755 -d debian/spaln-data//usr cp --reflink=auto -a debian/tmp/usr/share debian/spaln-data//usr/ dh_installdocs -O--sourcedirectory=src install -m0755 -d debian/spaln/usr/share/doc/spaln install -m0755 -d debian/spaln/usr/share/doc/spaln cp --reflink=auto -a ./README.md debian/spaln/usr/share/doc/spaln cp --reflink=auto -a ./debian/README.test debian/spaln/usr/share/doc/spaln cp --reflink=auto -a ./debian/tests/run-unit-test debian/spaln/usr/share/doc/spaln chmod -R u\+rw,go=rX debian/spaln/usr/share/doc install -p -m0644 debian/README.Debian debian/spaln/usr/share/doc/spaln/README.Debian install -p -m0644 debian/copyright debian/spaln/usr/share/doc/spaln/copyright install -m0755 -d debian/spaln-data/usr/share/doc/spaln-data install -p -m0644 debian/copyright debian/spaln-data/usr/share/doc/spaln-data/copyright dh_installchangelogs -O--sourcedirectory=src install -m0755 -d debian/spaln-data/usr/share/doc/spaln-data install -p -m0644 debian/.debhelper/generated/spaln-data/dh_installchangelogs.dch.trimmed debian/spaln-data/usr/share/doc/spaln-data/changelog.Debian install -m0755 -d debian/spaln/usr/share/doc/spaln install -p -m0644 debian/.debhelper/generated/spaln/dh_installchangelogs.dch.trimmed debian/spaln/usr/share/doc/spaln/changelog.Debian dh_installman -O--sourcedirectory=src install -m0755 -d debian/spaln/usr/share/man/man1/ install -p -m0644 ./sortgrcd.1 debian/spaln/usr/share/man/man1/sortgrcd.1 install -m0755 -d debian/spaln/usr/share/man/man1/ install -p -m0644 ./spaln.1 debian/spaln/usr/share/man/man1/spaln.1 man-recode --to-code UTF-8 --suffix .dh-new debian/spaln/usr/share/man/man1/sortgrcd.1 man-recode --to-code UTF-8 --suffix .dh-new debian/spaln/usr/share/man/man1/spaln.1 mv debian/spaln/usr/share/man/man1/spaln.1.dh-new debian/spaln/usr/share/man/man1/spaln.1 chmod 0644 -- debian/spaln/usr/share/man/man1/spaln.1 mv debian/spaln/usr/share/man/man1/sortgrcd.1.dh-new debian/spaln/usr/share/man/man1/sortgrcd.1 chmod 0644 -- debian/spaln/usr/share/man/man1/sortgrcd.1 dh_installsystemduser -O--sourcedirectory=src dh_perl -O--sourcedirectory=src mv debian/spaln-data.substvars.new debian/spaln-data.substvars dh_link -O--sourcedirectory=src dh_strip_nondeterminism -O--sourcedirectory=src Using 1707770215 as canonical time Normalizing debian/spaln-data/usr/share/spaln/seqdb/dictdisc.faa.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/spaln-data/usr/share/spaln/seqdb/dictdisc.cf.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/spaln-data/usr/share/spaln/seqdb/dictdisc_g.gf.gz using File::StripNondeterminism::handlers::gzip dh_compress -O--sourcedirectory=src cd debian/spaln cd debian/spaln-data chmod a-x usr/share/doc/spaln-data/changelog.Debian chmod a-x usr/share/doc/spaln/README.md usr/share/doc/spaln/changelog.Debian usr/share/man/man1/sortgrcd.1 usr/share/man/man1/spaln.1 gzip -9nf usr/share/doc/spaln-data/changelog.Debian gzip -9nf usr/share/doc/spaln/README.md usr/share/doc/spaln/changelog.Debian usr/share/man/man1/sortgrcd.1 usr/share/man/man1/spaln.1 cd '/build/reproducible-path/spaln-3.0.2+dfsg' cd '/build/reproducible-path/spaln-3.0.2+dfsg' dh_fixperms -O--sourcedirectory=src find debian/spaln ! -type l -a -true -a -true -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s find debian/spaln-data ! -type l -a -true -a -true -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s find debian/spaln/usr/share/doc -type f -a -true -a ! -regex 'debian/spaln/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644 find debian/spaln/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 find debian/spaln/usr/share/man -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/spaln -type f \( -name '*.so.*' -o -name '*.so' -o -name '*.la' -o -name '*.a' -o -name '*.js' -o -name '*.css' -o -name '*.scss' -o -name '*.sass' -o -name '*.jpeg' -o -name '*.jpg' -o -name '*.png' -o -name '*.gif' -o -name '*.cmxs' -o -name '*.node' \) -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/spaln/usr/bin -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod a+x find debian/spaln-data/usr/share/doc -type f -a -true -a ! -regex 'debian/spaln-data/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644 find debian/spaln-data/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 find debian/spaln-data -type f \( -name '*.so.*' -o -name '*.so' -o -name '*.la' -o -name '*.a' -o -name '*.js' -o -name '*.css' -o -name '*.scss' -o -name '*.sass' -o -name '*.jpeg' -o -name '*.jpg' -o -name '*.png' -o -name '*.gif' -o -name '*.cmxs' -o -name '*.node' \) -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 dh_missing -O--sourcedirectory=src dh_dwz -a -O--sourcedirectory=src install -m0755 -d debian/spaln/usr/lib/debug/.dwz/x86_64-linux-gnu dwz -mdebian/spaln/usr/lib/debug/.dwz/x86_64-linux-gnu/spaln.debug -M/usr/lib/debug/.dwz/x86_64-linux-gnu/spaln.debug -- debian/spaln/usr/bin/compild debian/spaln/usr/bin/decompild debian/spaln/usr/bin/dvn debian/spaln/usr/bin/exinpot debian/spaln/usr/bin/fitild debian/spaln/usr/bin/kmers debian/spaln/usr/bin/makdbs debian/spaln/usr/bin/makmdm debian/spaln/usr/bin/npssm debian/spaln/usr/bin/plotild debian/spaln/usr/bin/rdn debian/spaln/usr/bin/sortgrcd debian/spaln/usr/bin/spaln debian/spaln/usr/bin/utn objcopy --compress-debug-sections debian/spaln/usr/lib/debug/.dwz/x86_64-linux-gnu/spaln.debug chmod 0644 -- debian/spaln/usr/lib/debug/.dwz/x86_64-linux-gnu/spaln.debug dh_strip -a -O--sourcedirectory=src install -m0755 -d debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/8e objcopy --only-keep-debug --compress-debug-sections debian/spaln/usr/bin/decompild debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/8e/bb3be747acc125665534a61da5ce123a2868ee.debug chmod 0644 -- debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/8e/bb3be747acc125665534a61da5ce123a2868ee.debug strip --remove-section=.comment --remove-section=.note debian/spaln/usr/bin/decompild objcopy --add-gnu-debuglink debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/8e/bb3be747acc125665534a61da5ce123a2868ee.debug debian/spaln/usr/bin/decompild install -m0755 -d debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/51 objcopy --only-keep-debug --compress-debug-sections debian/spaln/usr/bin/sortgrcd debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/51/e0933efbd67860080412e11109152359be9e6c.debug chmod 0644 -- debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/51/e0933efbd67860080412e11109152359be9e6c.debug strip --remove-section=.comment --remove-section=.note debian/spaln/usr/bin/sortgrcd objcopy --add-gnu-debuglink debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/51/e0933efbd67860080412e11109152359be9e6c.debug debian/spaln/usr/bin/sortgrcd install -m0755 -d debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/4b objcopy --only-keep-debug --compress-debug-sections debian/spaln/usr/bin/spaln debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/4b/28624680981e068f327a5b76222e57c27af7eb.debug chmod 0644 -- debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/4b/28624680981e068f327a5b76222e57c27af7eb.debug strip --remove-section=.comment --remove-section=.note debian/spaln/usr/bin/spaln objcopy --add-gnu-debuglink debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/4b/28624680981e068f327a5b76222e57c27af7eb.debug debian/spaln/usr/bin/spaln install -m0755 -d debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/37 objcopy --only-keep-debug --compress-debug-sections debian/spaln/usr/bin/rdn debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/37/38c2274380a836c5a8b2cc3e0ab8a799e4dd46.debug chmod 0644 -- debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/37/38c2274380a836c5a8b2cc3e0ab8a799e4dd46.debug strip --remove-section=.comment --remove-section=.note debian/spaln/usr/bin/rdn objcopy --add-gnu-debuglink debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/37/38c2274380a836c5a8b2cc3e0ab8a799e4dd46.debug debian/spaln/usr/bin/rdn install -m0755 -d debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/61 objcopy --only-keep-debug --compress-debug-sections debian/spaln/usr/bin/npssm debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/61/d04921b830808f190684eb71427ba39110b1e9.debug chmod 0644 -- debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/61/d04921b830808f190684eb71427ba39110b1e9.debug strip --remove-section=.comment --remove-section=.note debian/spaln/usr/bin/npssm objcopy --add-gnu-debuglink debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/61/d04921b830808f190684eb71427ba39110b1e9.debug debian/spaln/usr/bin/npssm install -m0755 -d debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/29 objcopy --only-keep-debug --compress-debug-sections debian/spaln/usr/bin/makmdm debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/29/d99a14fea223f4d2582e3d6d5c289d00a8932b.debug chmod 0644 -- debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/29/d99a14fea223f4d2582e3d6d5c289d00a8932b.debug strip --remove-section=.comment --remove-section=.note debian/spaln/usr/bin/makmdm objcopy --add-gnu-debuglink debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/29/d99a14fea223f4d2582e3d6d5c289d00a8932b.debug debian/spaln/usr/bin/makmdm install -m0755 -d debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/75 objcopy --only-keep-debug --compress-debug-sections debian/spaln/usr/bin/dvn debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/75/cbf4ed37cfa0ba7feced9e3cae5ee72352bdd9.debug chmod 0644 -- debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/75/cbf4ed37cfa0ba7feced9e3cae5ee72352bdd9.debug strip --remove-section=.comment --remove-section=.note debian/spaln/usr/bin/dvn objcopy --add-gnu-debuglink debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/75/cbf4ed37cfa0ba7feced9e3cae5ee72352bdd9.debug debian/spaln/usr/bin/dvn install -m0755 -d debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/b6 objcopy --only-keep-debug --compress-debug-sections debian/spaln/usr/bin/fitild debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/b6/3de20d098226a3bd3da4410e00cac79cb6de48.debug chmod 0644 -- debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/b6/3de20d098226a3bd3da4410e00cac79cb6de48.debug strip --remove-section=.comment --remove-section=.note debian/spaln/usr/bin/fitild objcopy --add-gnu-debuglink debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/b6/3de20d098226a3bd3da4410e00cac79cb6de48.debug debian/spaln/usr/bin/fitild install -m0755 -d debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/4d objcopy --only-keep-debug --compress-debug-sections debian/spaln/usr/bin/compild debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/4d/aafcfc8dc3ddca15a7c2c2dab72b9f16f0f44b.debug chmod 0644 -- debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/4d/aafcfc8dc3ddca15a7c2c2dab72b9f16f0f44b.debug strip --remove-section=.comment --remove-section=.note debian/spaln/usr/bin/compild objcopy --add-gnu-debuglink debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/4d/aafcfc8dc3ddca15a7c2c2dab72b9f16f0f44b.debug debian/spaln/usr/bin/compild install -m0755 -d debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/03 objcopy --only-keep-debug --compress-debug-sections debian/spaln/usr/bin/plotild debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/03/441782c06c568cedfb72f489642bd5facfb234.debug chmod 0644 -- debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/03/441782c06c568cedfb72f489642bd5facfb234.debug strip --remove-section=.comment --remove-section=.note debian/spaln/usr/bin/plotild objcopy --add-gnu-debuglink debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/03/441782c06c568cedfb72f489642bd5facfb234.debug debian/spaln/usr/bin/plotild install -m0755 -d debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/1f objcopy --only-keep-debug --compress-debug-sections debian/spaln/usr/bin/exinpot debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/1f/20c684542531d643099ab09a4b159566270385.debug chmod 0644 -- debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/1f/20c684542531d643099ab09a4b159566270385.debug strip --remove-section=.comment --remove-section=.note debian/spaln/usr/bin/exinpot objcopy --add-gnu-debuglink debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/1f/20c684542531d643099ab09a4b159566270385.debug debian/spaln/usr/bin/exinpot install -m0755 -d debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/e0 objcopy --only-keep-debug --compress-debug-sections debian/spaln/usr/bin/kmers debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/e0/58c2ac7ff3025586832397aff07603a29f5633.debug chmod 0644 -- debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/e0/58c2ac7ff3025586832397aff07603a29f5633.debug strip --remove-section=.comment --remove-section=.note debian/spaln/usr/bin/kmers objcopy --add-gnu-debuglink debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/e0/58c2ac7ff3025586832397aff07603a29f5633.debug debian/spaln/usr/bin/kmers install -m0755 -d debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/39 objcopy --only-keep-debug --compress-debug-sections debian/spaln/usr/bin/utn debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/39/1a9ca55db6aca7b70f77ac3cf84cc4962d7b55.debug chmod 0644 -- debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/39/1a9ca55db6aca7b70f77ac3cf84cc4962d7b55.debug strip --remove-section=.comment --remove-section=.note debian/spaln/usr/bin/utn objcopy --add-gnu-debuglink debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/39/1a9ca55db6aca7b70f77ac3cf84cc4962d7b55.debug debian/spaln/usr/bin/utn install -m0755 -d debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/73 objcopy --only-keep-debug --compress-debug-sections debian/spaln/usr/bin/makdbs debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/73/40bc199a5f8e10a0be882a00e00ba63b2bba6c.debug chmod 0644 -- debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/73/40bc199a5f8e10a0be882a00e00ba63b2bba6c.debug strip --remove-section=.comment --remove-section=.note debian/spaln/usr/bin/makdbs objcopy --add-gnu-debuglink debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/73/40bc199a5f8e10a0be882a00e00ba63b2bba6c.debug debian/spaln/usr/bin/makdbs install -m0755 -d debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.dwz cp --reflink=auto -a debian/spaln/usr/lib/debug/.dwz/x86_64-linux-gnu debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.dwz rm -fr debian/spaln/usr/lib/debug/.dwz rmdir -p --ignore-fail-on-non-empty debian/spaln/usr/lib/debug install -m0755 -d debian/.debhelper/spaln/dbgsym-root/usr/share/doc ln -s spaln debian/.debhelper/spaln/dbgsym-root/usr/share/doc/spaln-dbgsym install -m0755 -d debian/.debhelper/spaln dh_makeshlibs -a -O--sourcedirectory=src rm -f debian/spaln/DEBIAN/shlibs dh_shlibdeps -a -O--sourcedirectory=src install -m0755 -d debian/spaln/DEBIAN dpkg-shlibdeps -Tdebian/spaln.substvars debian/spaln/usr/bin/decompild debian/spaln/usr/bin/sortgrcd debian/spaln/usr/bin/spaln debian/spaln/usr/bin/rdn debian/spaln/usr/bin/npssm debian/spaln/usr/bin/makmdm debian/spaln/usr/bin/dvn debian/spaln/usr/bin/fitild debian/spaln/usr/bin/compild debian/spaln/usr/bin/plotild debian/spaln/usr/bin/exinpot debian/spaln/usr/bin/kmers debian/spaln/usr/bin/utn debian/spaln/usr/bin/makdbs dh_installdeb -O--sourcedirectory=src install -m0755 -d debian/spaln/DEBIAN install -m0755 -d debian/spaln-data/DEBIAN dh_gencontrol -O--sourcedirectory=src install -m0755 -d debian/spaln-data/DEBIAN echo misc:Depends= >> debian/spaln-data.substvars echo misc:Pre-Depends= >> debian/spaln-data.substvars dpkg-gencontrol -pspaln-data -ldebian/changelog -Tdebian/spaln-data.substvars -cdebian/control -Pdebian/spaln-data install -m0755 -d debian/spaln/DEBIAN echo misc:Depends= >> debian/spaln.substvars echo misc:Pre-Depends= >> debian/spaln.substvars install -m0755 -d debian/.debhelper/spaln/dbgsym-root/DEBIAN dpkg-gencontrol -pspaln -ldebian/changelog -Tdebian/spaln.substvars -cdebian/control -Pdebian/.debhelper/spaln/dbgsym-root -UPre-Depends -URecommends -USuggests -UEnhances -UProvides -UEssential -UConflicts -DPriority=optional -UHomepage -UImportant -DAuto-Built-Package=debug-symbols -UProtected -UBuilt-Using -UStatic-Built-Using -DPackage=spaln-dbgsym -DDepends="spaln (= \${binary:Version})" -DDescription="debug symbols for spaln" -DBuild-Ids="03441782c06c568cedfb72f489642bd5facfb234 1f20c684542531d643099ab09a4b159566270385 29d99a14fea223f4d2582e3d6d5c289d00a8932b 3738c2274380a836c5a8b2cc3e0ab8a799e4dd46 391a9ca55db6aca7b70f77ac3cf84cc4962d7b55 4b28624680981e068f327a5b76222e57c27af7eb 4daafcfc8dc3ddca15a7c2c2dab72b9f16f0f44b 51e0933efbd67860080412e11109152359be9e6c 61d04921b830808f190684eb71427ba39110b1e9 7340bc199a5f8e10a0be882a00e00ba63b2bba6c 75cbf4ed37cfa0ba7feced9e3cae5ee72352bdd9 8ebb3be747acc125665534a61da5ce123a2868ee b63de20d098226a3bd3da4410e00cac79cb6de48 e058c2ac7ff3025586832397aff07603a29f5633" -DSection=debug -UMulti-Arch -UReplaces -UBreaks chmod 0644 -- debian/.debhelper/spaln/dbgsym-root/DEBIAN/control dpkg-gencontrol -pspaln -ldebian/changelog -Tdebian/spaln.substvars -cdebian/control -Pdebian/spaln dpkg-gencontrol: warning: package spaln-data: substitution variable ${perl:Depends} unused, but is defined chmod 0644 -- debian/spaln-data/DEBIAN/control chmod 0644 -- debian/spaln/DEBIAN/control dh_md5sums -O--sourcedirectory=src install -m0755 -d debian/spaln-data/DEBIAN install -m0755 -d debian/spaln/DEBIAN cd debian/spaln >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums cd debian/spaln-data >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums chmod 0644 -- debian/spaln/DEBIAN/md5sums install -m0755 -d debian/.debhelper/spaln/dbgsym-root/DEBIAN cd debian/.debhelper/spaln/dbgsym-root >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums chmod 0644 -- debian/.debhelper/spaln/dbgsym-root/DEBIAN/md5sums chmod 0644 -- debian/spaln-data/DEBIAN/md5sums dh_builddeb -O--sourcedirectory=src dpkg-deb --root-owner-group --build debian/spaln .. dpkg-deb --root-owner-group --build debian/.debhelper/spaln/dbgsym-root .. dpkg-deb --root-owner-group --build debian/spaln-data .. dpkg-deb: building package 'spaln' in '../spaln_3.0.2+dfsg-2_amd64.deb'. dpkg-deb: building package 'spaln-dbgsym' in '../spaln-dbgsym_3.0.2+dfsg-2_amd64.deb'. dpkg-deb: building package 'spaln-data' in '../spaln-data_3.0.2+dfsg-2_all.deb'. dpkg-genbuildinfo --build=binary -O../spaln_3.0.2+dfsg-2_amd64.buildinfo dpkg-genchanges --build=binary -O../spaln_3.0.2+dfsg-2_amd64.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/863081 and its subdirectories I: Current time: Fri Dec 4 04:54:20 -12 2026 I: pbuilder-time-stamp: 1796403260 Sat Nov 1 10:31:21 UTC 2025 I: 1st build successful. Starting 2nd build on remote node ionos1-amd64.debian.net. Sat Nov 1 10:31:21 UTC 2025 I: Preparing to do remote build '2' on ionos1-amd64.debian.net. Sat Nov 1 10:31:21 UTC 2025 - checking /var/lib/jenkins/offline_nodes if ionos1-amd64.debian.net is marked as down. Sat Nov 1 10:31:21 UTC 2025 - checking via ssh if ionos1-amd64.debian.net is up. removed '/tmp/read-only-fs-test-vJr4mn' ==================================================================================== Sat Nov 1 10:31:21 UTC 2025 - running /srv/jenkins/bin/reproducible_build.sh (for job /srv/jenkins/bin/reproducible_build.sh) on ionos1-amd64, called using "2 spaln unstable /srv/reproducible-results/rbuild-debian/r-b-build.1WvqLAiB 3.0.2+dfsg-2" as arguments. Sat Nov 1 10:31:21 UTC 2025 - actually running "reproducible_build.sh" (md5sum bcb6fe1b50cf4e8eedacd0971a9eb63f) as "/tmp/jenkins-script-HQRYDgtR" $ git clone https://salsa.debian.org/qa/jenkins.debian.net.git ; more CONTRIBUTING Sat Nov 1 10:31:21 UTC 2025 I: Downloading source for unstable/spaln=3.0.2+dfsg-2 Reading package lists... NOTICE: 'spaln' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/spaln.git Please use: git clone https://salsa.debian.org/med-team/spaln.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 19.8 MB of source archives. Get:1 http://deb.debian.org/debian unstable/main spaln 3.0.2+dfsg-2 (dsc) [2224 B] Get:2 http://deb.debian.org/debian unstable/main spaln 3.0.2+dfsg-2 (tar) [19.8 MB] Get:3 http://deb.debian.org/debian unstable/main spaln 3.0.2+dfsg-2 (diff) [6124 B] Fetched 19.8 MB in 0s (134 MB/s) Download complete and in download only mode Reading package lists... NOTICE: 'spaln' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/spaln.git Please use: git clone https://salsa.debian.org/med-team/spaln.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 19.8 MB of source archives. Get:1 http://deb.debian.org/debian unstable/main spaln 3.0.2+dfsg-2 (dsc) [2224 B] Get:2 http://deb.debian.org/debian unstable/main spaln 3.0.2+dfsg-2 (tar) [19.8 MB] Get:3 http://deb.debian.org/debian unstable/main spaln 3.0.2+dfsg-2 (diff) [6124 B] Fetched 19.8 MB in 0s (134 MB/s) Download complete and in download only mode ============================================================================= Re-Building spaln in unstable on amd64 on ionos1-amd64 now. Date: Sat Nov 1 10:31:21 UTC 2025 Date UTC: Sat Nov 1 10:31:21 UTC 2025 ============================================================================= ++ mktemp -t pbuilderrc_XXXX --tmpdir=/srv/reproducible-results/rbuild-debian/r-b-build.1WvqLAiB + local TMPCFG=/srv/reproducible-results/rbuild-debian/r-b-build.1WvqLAiB/pbuilderrc_lwB4 + case ${ARCH} in + case $ARCH in + locale=et_EE + language=et + case "${SUITE}" in + reproducible_buildflags=+all + extra_deb_build_options= + case "${SRCPACKAGE}" in + cat + echo BUILDDIR=/build/reproducible-path + '[' spaln = debian-installer -o spaln = debian-installer-netboot-images ']' + pbuilder_options=() + local pbuilder_options + DEBBUILDOPTS=-b + BINARYTARGET= + '[' spaln = u-boot ']' + case "${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.1WvqLAiB/pbuilderrc_lwB4 --distribution unstable --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.1WvqLAiB/b2 --logfile b2/build.log spaln_3.0.2+dfsg-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: Sun Nov 2 00:31:22 +14 2025 I: pbuilder-time-stamp: 1761993082 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-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 [spaln_3.0.2+dfsg-2.dsc] I: copying [./spaln_3.0.2+dfsg.orig.tar.xz] I: copying [./spaln_3.0.2+dfsg-2.debian.tar.xz] I: Extracting source dpkg-source: warning: cannot verify inline signature for ./spaln_3.0.2+dfsg-2.dsc: no acceptable signature found dpkg-source: info: extracting spaln in spaln-3.0.2+dfsg dpkg-source: info: unpacking spaln_3.0.2+dfsg.orig.tar.xz dpkg-source: info: unpacking spaln_3.0.2+dfsg-2.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying hardening.patch dpkg-source: info: applying portability.patch dpkg-source: info: applying add_path_to_testscript.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/919712/tmp/hooks/D01_modify_environment starting debug: Running on ionos1-amd64. I: Changing host+domainname to test build reproducibility I: Adding a custom variable just for the fun of it... I: Changing /bin/sh to bash '/bin/sh' -> '/bin/bash' lrwxrwxrwx 1 root root 9 Nov 1 10:31 /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/919712/tmp/hooks/D01_modify_environment finished I: user script /srv/workspace/pbuilder/919712/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]="x86_64-pc-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=amd64 DEBIAN_FRONTEND=noninteractive DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=40 nocheck' DIRSTACK=() DISTRIBUTION=unstable EUID=0 FUNCNAME=([0]="Echo" [1]="main") GROUPS=() HOME=/root HOSTNAME=i-capture-the-hostname HOSTTYPE=x86_64 HOST_ARCH=amd64 IFS=' ' INVOCATION_ID=bdcf0e342af7403e9795e40625495439 LANG=C LANGUAGE=et_EE:et LC_ALL=C MACHTYPE=x86_64-pc-linux-gnu MAIL=/var/mail/root OPTERR=1 OPTIND=1 OSTYPE=linux-gnu PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path PBCURRENTCOMMANDLINEOPERATION=build PBUILDER_OPERATION=build PBUILDER_PKGDATADIR=/usr/share/pbuilder PBUILDER_PKGLIBDIR=/usr/lib/pbuilder PBUILDER_SYSCONFDIR=/etc PIPESTATUS=([0]="0") POSIXLY_CORRECT=y PPID=919712 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.1WvqLAiB/pbuilderrc_lwB4 --distribution unstable --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.1WvqLAiB/b2 --logfile b2/build.log spaln_3.0.2+dfsg-2.dsc' SUDO_GID=110 SUDO_HOME=/var/lib/jenkins SUDO_UID=105 SUDO_USER=jenkins TERM=unknown TZ=/usr/share/zoneinfo/Etc/GMT-14 UID=0 USER=root _='I: set' http_proxy=http://46.16.76.132:3128 I: uname -a Linux i-capture-the-hostname 6.12.48+deb13-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.12.48-1 (2025-09-20) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Aug 10 12:30 /bin -> usr/bin I: user script /srv/workspace/pbuilder/919712/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: amd64 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13), zlib1g-dev, libgsl-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 ... 19862 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on zlib1g-dev; however: Package zlib1g-dev is not installed. pbuilder-satisfydepends-dummy depends on libgsl-dev; however: Package libgsl-dev is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libdebhelper-perl{a} libelf1t64{a} libfile-stripnondeterminism-perl{a} libgsl-dev{a} libgsl28{a} libgslcblas0{a} libmagic-mgc{a} libmagic1t64{a} libpipeline1{a} libtool{a} libuchardet0{a} libunistring5{a} libxml2-16{a} m4{a} man-db{a} po-debconf{a} sensible-utils{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: curl libarchive-cpio-perl libltdl-dev libmail-sendmail-perl lynx wget 0 packages upgraded, 33 newly installed, 0 to remove and 0 not upgraded. Need to get 14.7 MB of archives. After unpacking 56.6 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian unstable/main amd64 sensible-utils all 0.0.26 [27.0 kB] Get: 2 http://deb.debian.org/debian unstable/main amd64 libmagic-mgc amd64 1:5.46-5 [338 kB] Get: 3 http://deb.debian.org/debian unstable/main amd64 libmagic1t64 amd64 1:5.46-5 [109 kB] Get: 4 http://deb.debian.org/debian unstable/main amd64 file amd64 1:5.46-5 [43.6 kB] Get: 5 http://deb.debian.org/debian unstable/main amd64 gettext-base amd64 0.23.1-2+b1 [244 kB] Get: 6 http://deb.debian.org/debian unstable/main amd64 libuchardet0 amd64 0.0.8-2 [68.5 kB] Get: 7 http://deb.debian.org/debian unstable/main amd64 groff-base amd64 1.23.0-9 [1187 kB] Get: 8 http://deb.debian.org/debian unstable/main amd64 bsdextrautils amd64 2.41.2-4 [98.5 kB] Get: 9 http://deb.debian.org/debian unstable/main amd64 libpipeline1 amd64 1.5.8-1 [42.0 kB] Get: 10 http://deb.debian.org/debian unstable/main amd64 man-db amd64 2.13.1-1 [1469 kB] Get: 11 http://deb.debian.org/debian unstable/main amd64 m4 amd64 1.4.20-2 [325 kB] Get: 12 http://deb.debian.org/debian unstable/main amd64 autoconf all 2.72-3.1 [494 kB] Get: 13 http://deb.debian.org/debian unstable/main amd64 autotools-dev all 20240727.1 [60.2 kB] Get: 14 http://deb.debian.org/debian unstable/main amd64 automake all 1:1.18.1-2 [877 kB] Get: 15 http://deb.debian.org/debian unstable/main amd64 autopoint all 0.23.1-2 [770 kB] Get: 16 http://deb.debian.org/debian unstable/main amd64 libdebhelper-perl all 13.28 [92.4 kB] Get: 17 http://deb.debian.org/debian unstable/main amd64 libtool all 2.5.4-7 [540 kB] Get: 18 http://deb.debian.org/debian unstable/main amd64 dh-autoreconf all 21 [12.2 kB] Get: 19 http://deb.debian.org/debian unstable/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 20 http://deb.debian.org/debian unstable/main amd64 libfile-stripnondeterminism-perl all 1.15.0-1 [19.9 kB] Get: 21 http://deb.debian.org/debian unstable/main amd64 dh-strip-nondeterminism all 1.15.0-1 [8812 B] Get: 22 http://deb.debian.org/debian unstable/main amd64 libelf1t64 amd64 0.194-1 [185 kB] Get: 23 http://deb.debian.org/debian unstable/main amd64 dwz amd64 0.16-2 [108 kB] Get: 24 http://deb.debian.org/debian unstable/main amd64 libunistring5 amd64 1.3-2 [477 kB] Get: 25 http://deb.debian.org/debian unstable/main amd64 libxml2-16 amd64 2.15.1+dfsg-0.3 [640 kB] Get: 26 http://deb.debian.org/debian unstable/main amd64 gettext amd64 0.23.1-2+b1 [1680 kB] Get: 27 http://deb.debian.org/debian unstable/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 28 http://deb.debian.org/debian unstable/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 29 http://deb.debian.org/debian unstable/main amd64 debhelper all 13.28 [941 kB] Get: 30 http://deb.debian.org/debian unstable/main amd64 libgslcblas0 amd64 2.8+dfsg-5.1 [137 kB] Get: 31 http://deb.debian.org/debian unstable/main amd64 libgsl28 amd64 2.8+dfsg-5.1 [1068 kB] Get: 32 http://deb.debian.org/debian unstable/main amd64 libgsl-dev amd64 2.8+dfsg-5.1 [1336 kB] Get: 33 http://deb.debian.org/debian unstable/main amd64 zlib1g-dev amd64 1:1.3.dfsg+really1.3.1-1+b1 [920 kB] Fetched 14.7 MB in 1s (23.8 MB/s) Preconfiguring packages ... Selecting previously unselected package sensible-utils. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19862 files and directories currently installed.) Preparing to unpack .../00-sensible-utils_0.0.26_all.deb ... Unpacking sensible-utils (0.0.26) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../01-libmagic-mgc_1%3a5.46-5_amd64.deb ... Unpacking libmagic-mgc (1:5.46-5) ... Selecting previously unselected package libmagic1t64:amd64. Preparing to unpack .../02-libmagic1t64_1%3a5.46-5_amd64.deb ... Unpacking libmagic1t64:amd64 (1:5.46-5) ... Selecting previously unselected package file. Preparing to unpack .../03-file_1%3a5.46-5_amd64.deb ... Unpacking file (1:5.46-5) ... Selecting previously unselected package gettext-base. Preparing to unpack .../04-gettext-base_0.23.1-2+b1_amd64.deb ... Unpacking gettext-base (0.23.1-2+b1) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../05-libuchardet0_0.0.8-2_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.8-2) ... Selecting previously unselected package groff-base. Preparing to unpack .../06-groff-base_1.23.0-9_amd64.deb ... Unpacking groff-base (1.23.0-9) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../07-bsdextrautils_2.41.2-4_amd64.deb ... Unpacking bsdextrautils (2.41.2-4) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../08-libpipeline1_1.5.8-1_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.8-1) ... Selecting previously unselected package man-db. Preparing to unpack .../09-man-db_2.13.1-1_amd64.deb ... Unpacking man-db (2.13.1-1) ... Selecting previously unselected package m4. Preparing to unpack .../10-m4_1.4.20-2_amd64.deb ... Unpacking m4 (1.4.20-2) ... Selecting previously unselected package autoconf. Preparing to unpack .../11-autoconf_2.72-3.1_all.deb ... Unpacking autoconf (2.72-3.1) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../12-autotools-dev_20240727.1_all.deb ... Unpacking autotools-dev (20240727.1) ... Selecting previously unselected package automake. Preparing to unpack .../13-automake_1%3a1.18.1-2_all.deb ... Unpacking automake (1:1.18.1-2) ... Selecting previously unselected package autopoint. Preparing to unpack .../14-autopoint_0.23.1-2_all.deb ... Unpacking autopoint (0.23.1-2) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../15-libdebhelper-perl_13.28_all.deb ... Unpacking libdebhelper-perl (13.28) ... Selecting previously unselected package libtool. Preparing to unpack .../16-libtool_2.5.4-7_all.deb ... Unpacking libtool (2.5.4-7) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../17-dh-autoreconf_21_all.deb ... Unpacking dh-autoreconf (21) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../18-libarchive-zip-perl_1.68-1_all.deb ... Unpacking libarchive-zip-perl (1.68-1) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../19-libfile-stripnondeterminism-perl_1.15.0-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.15.0-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../20-dh-strip-nondeterminism_1.15.0-1_all.deb ... Unpacking dh-strip-nondeterminism (1.15.0-1) ... Selecting previously unselected package libelf1t64:amd64. Preparing to unpack .../21-libelf1t64_0.194-1_amd64.deb ... Unpacking libelf1t64:amd64 (0.194-1) ... Selecting previously unselected package dwz. Preparing to unpack .../22-dwz_0.16-2_amd64.deb ... Unpacking dwz (0.16-2) ... Selecting previously unselected package libunistring5:amd64. Preparing to unpack .../23-libunistring5_1.3-2_amd64.deb ... Unpacking libunistring5:amd64 (1.3-2) ... Selecting previously unselected package libxml2-16:amd64. Preparing to unpack .../24-libxml2-16_2.15.1+dfsg-0.3_amd64.deb ... Unpacking libxml2-16:amd64 (2.15.1+dfsg-0.3) ... Selecting previously unselected package gettext. Preparing to unpack .../25-gettext_0.23.1-2+b1_amd64.deb ... Unpacking gettext (0.23.1-2+b1) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../26-intltool-debian_0.35.0+20060710.6_all.deb ... Unpacking intltool-debian (0.35.0+20060710.6) ... Selecting previously unselected package po-debconf. Preparing to unpack .../27-po-debconf_1.0.21+nmu1_all.deb ... Unpacking po-debconf (1.0.21+nmu1) ... Selecting previously unselected package debhelper. Preparing to unpack .../28-debhelper_13.28_all.deb ... Unpacking debhelper (13.28) ... Selecting previously unselected package libgslcblas0:amd64. Preparing to unpack .../29-libgslcblas0_2.8+dfsg-5.1_amd64.deb ... Unpacking libgslcblas0:amd64 (2.8+dfsg-5.1) ... Selecting previously unselected package libgsl28:amd64. Preparing to unpack .../30-libgsl28_2.8+dfsg-5.1_amd64.deb ... Unpacking libgsl28:amd64 (2.8+dfsg-5.1) ... Selecting previously unselected package libgsl-dev. Preparing to unpack .../31-libgsl-dev_2.8+dfsg-5.1_amd64.deb ... Unpacking libgsl-dev (2.8+dfsg-5.1) ... Selecting previously unselected package zlib1g-dev:amd64. Preparing to unpack .../32-zlib1g-dev_1%3a1.3.dfsg+really1.3.1-1+b1_amd64.deb ... Unpacking zlib1g-dev:amd64 (1:1.3.dfsg+really1.3.1-1+b1) ... Setting up libpipeline1:amd64 (1.5.8-1) ... Setting up bsdextrautils (2.41.2-4) ... Setting up libgslcblas0:amd64 (2.8+dfsg-5.1) ... Setting up libmagic-mgc (1:5.46-5) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libxml2-16:amd64 (2.15.1+dfsg-0.3) ... Setting up libdebhelper-perl (13.28) ... Setting up libmagic1t64:amd64 (1:5.46-5) ... Setting up gettext-base (0.23.1-2+b1) ... Setting up m4 (1.4.20-2) ... Setting up file (1:5.46-5) ... Setting up libelf1t64:amd64 (0.194-1) ... Setting up autotools-dev (20240727.1) ... Setting up libunistring5:amd64 (1.3-2) ... Setting up autopoint (0.23.1-2) ... Setting up autoconf (2.72-3.1) ... Setting up zlib1g-dev:amd64 (1:1.3.dfsg+really1.3.1-1+b1) ... Setting up dwz (0.16-2) ... Setting up sensible-utils (0.0.26) ... Setting up libuchardet0:amd64 (0.0.8-2) ... Setting up libgsl28:amd64 (2.8+dfsg-5.1) ... Setting up automake (1:1.18.1-2) ... update-alternatives: using /usr/bin/automake-1.18 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.15.0-1) ... Setting up gettext (0.23.1-2+b1) ... Setting up libgsl-dev (2.8+dfsg-5.1) ... Setting up libtool (2.5.4-7) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (21) ... Setting up dh-strip-nondeterminism (1.15.0-1) ... Setting up groff-base (1.23.0-9) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up man-db (2.13.1-1) ... Not building database; man-db/auto-update is not 'true'. Setting up debhelper (13.28) ... Processing triggers for libc-bin (2.41-12) ... Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package I: user script /srv/workspace/pbuilder/919712/tmp/hooks/A99_set_merged_usr starting Not re-configuring usrmerge for unstable I: user script /srv/workspace/pbuilder/919712/tmp/hooks/A99_set_merged_usr finished hostname: Name or service not known I: Running cd /build/reproducible-path/spaln-3.0.2+dfsg/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-genchanges -S > ../spaln_3.0.2+dfsg-2_source.changes dpkg-buildpackage: info: source package spaln dpkg-buildpackage: info: source version 3.0.2+dfsg-2 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean --sourcedirectory=src debian/rules override_dh_auto_clean make[1]: Entering directory '/build/reproducible-path/spaln-3.0.2+dfsg' dh_auto_clean || true rm -f src/dbs.h src/iolib.h src/*.o src/*.a src/Makefile make[1]: Leaving directory '/build/reproducible-path/spaln-3.0.2+dfsg' dh_autoreconf_clean -O--sourcedirectory=src dh_clean -O--sourcedirectory=src rm -f debian/debhelper-build-stamp rm -rf debian/.debhelper/ rm -f -- debian/spaln.substvars debian/spaln-data.substvars debian/files rm -fr -- debian/spaln/ debian/tmp/ debian/spaln-data/ find . \( \( \ \( -path .\*/.git -o -path .\*/.svn -o -path .\*/.bzr -o -path .\*/.hg -o -path .\*/CVS -o -path .\*/.pc -o -path .\*/_darcs \) -prune -o -type f -a \ \( -name '#*#' -o -name '.*~' -o -name '*~' -o -name DEADJOE \ -o -name '*.orig' -o -name '*.rej' -o -name '*.bak' \ -o -name '.*.orig' -o -name .*.rej -o -name '.SUMS' \ -o -name TAGS -o \( -path '*/.deps/*' -a -name '*.P' \) \ \) -exec rm -f {} + \) -o \ \( -type d -a \( -name autom4te.cache -o -name __pycache__ \) -prune -exec rm -rf {} + \) \) debian/rules binary dh binary --sourcedirectory=src dh_update_autotools_config -O--sourcedirectory=src dh_autoreconf -O--sourcedirectory=src debian/rules override_dh_auto_configure make[1]: Entering directory '/build/reproducible-path/spaln-3.0.2+dfsg' # the configure script is not originated from autoconf and needs to be manually called cd src && AR="x86_64-linux-gnu-ar rc" exec_prefix=/usr/bin table_dir=/usr/share/spaln/table alndbs_dir=/usr/share/spaln/seqdb ./configure OK, CXX=x86_64-linux-gnu-g++ CFLAGS=-g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic binaries install to /usr/bin tables install to /usr/share/spaln/table alndbs install to /usr/share/spaln/seqdb wrote Makefile wrote files OK. try make and make install. good luck! make[1]: Leaving directory '/build/reproducible-path/spaln-3.0.2+dfsg' debian/rules override_dh_auto_build make[1]: Entering directory '/build/reproducible-path/spaln-3.0.2+dfsg' dh_auto_build -- table_dir=/usr/share/spaln/table alndbs_dir=/usr/share/spaln/seqdb exec_prefix=/usr/bin cd src && make -j40 table_dir=/usr/share/spaln/table alndbs_dir=/usr/share/spaln/seqdb exec_prefix=/usr/bin make[2]: Entering directory '/build/reproducible-path/spaln-3.0.2+dfsg/src' x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c blksrc.cc x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c aln2.cc x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c dbs.cc x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c gaps.cc x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c codepot.cc x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c divseq.cc x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c gsinfo.cc x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c fwd2b1.cc x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c fwd2d1.cc x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c fwd2h1.cc x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c fwd2s1.cc x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c bitpat.cc cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c eijunc.cc cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c seq.cc cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c simmtx.cc cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c sqpr.cc x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c utilseq.cc cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c vmf.cc cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c wln.cc cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c boyer_moore.cc cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c clib.cc x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c iolib.cc x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c mfile.cc cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c sets.cc x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c supprime.cc cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ seq.cc: In function 'void reportseq(Seq**, int)': seq.cc:483:50: warning: format '%p' expects argument of type 'void*', but argument 9 has type 'int*' [-Wformat=] 483 | printf("%d\t%d\t%d\t%d\t%d\t%d\t%p\t%p\n", i + 1, | ~^ | | | void* | %n 484 | sd->sid, sd->vrtl, sd->len, sd->area_, sd->did, sd->seq_, sd->lens); | ~~~~~~~~ | | | int* x86_64-linux-gnu-ar rc clib.a clib.o iolib.o mfile.o sets.o supprime.o x86_64-linux-gnu-ranlib clib.a x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -o makmdm makmdm.cc clib.a -lpthread -lm -lz -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ x86_64-linux-gnu-ar rc sblib.a aln2.o dbs.o gaps.o codepot.o divseq.o gsinfo.o \ fwd2b1.o fwd2d1.o fwd2h1.o fwd2s1.o bitpat.o eijunc.o \ seq.o simmtx.o sqpr.o utilseq.o vmf.o wln.o boyer_moore.o x86_64-linux-gnu-ranlib sblib.a x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -o spaln spaln.cc blksrc.o sblib.a clib.a -lpthread -lm -lz -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -o sortgrcd sortgrcd.cc sblib.a clib.a -lpthread -lm -lz -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -o makdbs makdbs.cc sblib.a clib.a -lpthread -lm -lz -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ sortgrcd.cc: In function 'int count_record(const char*, const char*, size_t)': sortgrcd.cc:999:25: warning: ISO C++ forbids variable length array 'buf' [-Wvla] 999 | char buf[rcdsize]; | ^~~ spaln.cc: In function 'blkaln.isra': spaln.cc:858:46: warning: argument 1 value '18446744073709551615' exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 858 | Gsinfo* GsI = new Gsinfo[nparalog + 1]; | ^ /usr/include/c++/15/new:140:26: note: in a call to allocation function 'operator new []' declared here 140 | _GLIBCXX_NODISCARD void* operator new[](std::size_t) | ^ In function 'match_2', inlined from 'spaln_job' at spaln.cc:1142:14: spaln.cc:764:46: warning: argument 1 value '18446744073709551615' exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 764 | Gsinfo* GsI = new Gsinfo[nparalog + 1]; | ^ /usr/include/c++/15/new: In function 'spaln_job': /usr/include/c++/15/new:140:26: note: in a call to allocation function 'operator new []' declared here 140 | _GLIBCXX_NODISCARD void* operator new[](std::size_t) | ^ make[2]: Leaving directory '/build/reproducible-path/spaln-3.0.2+dfsg/src' make[1]: Leaving directory '/build/reproducible-path/spaln-3.0.2+dfsg' dh: command-omitted: The call to "dh_auto_test -O--sourcedirectory=src" was omitted due to "DEB_BUILD_OPTIONS=nocheck" create-stamp debian/debhelper-build-stamp dh_testroot -O--sourcedirectory=src dh_prep -O--sourcedirectory=src rm -f -- debian/spaln.substvars debian/spaln-data.substvars rm -fr -- debian/.debhelper/generated/spaln/ debian/spaln/ debian/tmp/ debian/.debhelper/generated/spaln-data/ debian/spaln-data/ rm -f debian/spaln-data.debhelper.log debian/spaln.debhelper.log debian/rules override_dh_auto_install make[1]: Entering directory '/build/reproducible-path/spaln-3.0.2+dfsg' dh_auto_install -- table_dir=/usr/share/spaln/table alndbs_dir=/usr/share/spaln/seqdb exec_prefix=/usr/bin install -m0755 -d /build/reproducible-path/spaln-3.0.2\+dfsg/debian/tmp cd src && make -j40 install DESTDIR=/build/reproducible-path/spaln-3.0.2\+dfsg/debian/tmp AM_UPDATE_INFO_DIR=no table_dir=/usr/share/spaln/table alndbs_dir=/usr/share/spaln/seqdb exec_prefix=/usr/bin make[2]: Entering directory '/build/reproducible-path/spaln-3.0.2+dfsg/src' test -d /build/reproducible-path/spaln-3.0.2+dfsg/debian/tmp/usr/bin || mkdir -p /build/reproducible-path/spaln-3.0.2+dfsg/debian/tmp/usr/bin if [ -s spaln ]; then\ cp spaln sortgrcd makmdm makdbs /build/reproducible-path/spaln-3.0.2+dfsg/debian/tmp/usr/bin; \ fi if [ -s exinpot ]; then \ cp dvn exinpot kmers npssm rdn utn /build/reproducible-path/spaln-3.0.2+dfsg/debian/tmp/usr/bin; \ fi if [ -s fitild ]; then \ cp fitild compild decompild plotild /build/reproducible-path/spaln-3.0.2+dfsg/debian/tmp/usr/bin; \ fi test -d /build/reproducible-path/spaln-3.0.2+dfsg/debian/tmp/usr/share/spaln/table || mkdir -p /build/reproducible-path/spaln-3.0.2+dfsg/debian/tmp/usr/share/spaln/table ./makmdm /build/reproducible-path/spaln-3.0.2+dfsg/debian/tmp/usr/share/spaln/table 7.6862 5.1057 4.2546 5.1269 2.0279 4.1061 6.1820 7.4714 2.2983 5.2569 9.1111 5.9498 2.3414 4.0530 5.0532 6.8225 5.8518 1.4336 3.2303 6.6374 Pam = 0 Norl fact = 106.899 trace = 106.899 Pam = 10 Norl fact = 13.996 trace = 41.995 Pam = 20 Norl fact = 15.588 trace = 45.299 Pam = 30 Norl fact = 16.894 trace = 47.531 Pam = 40 Norl fact = 18.094 trace = 49.266 Pam = 50 Norl fact = 19.249 trace = 50.701 Pam = 60 Norl fact = 20.386 trace = 51.928 Pam = 70 Norl fact = 21.522 trace = 52.997 Pam = 80 Norl fact = 22.667 trace = 53.943 Pam = 90 Norl fact = 23.828 trace = 54.788 Pam = 100 Norl fact = 25.012 trace = 55.547 Pam = 110 Norl fact = 26.222 trace = 56.234 Pam = 120 Norl fact = 27.462 trace = 56.858 Pam = 130 Norl fact = 28.735 trace = 57.427 Pam = 140 Norl fact = 30.044 trace = 57.946 Pam = 150 Norl fact = 31.391 trace = 58.421 Pam = 160 Norl fact = 32.778 trace = 58.858 Pam = 170 Norl fact = 34.208 trace = 59.259 Pam = 180 Norl fact = 35.683 trace = 59.629 Pam = 190 Norl fact = 37.204 trace = 59.970 Pam = 200 Norl fact = 38.774 trace = 60.286 Pam = 210 Norl fact = 40.394 trace = 60.580 Pam = 220 Norl fact = 42.066 trace = 60.854 Pam = 230 Norl fact = 43.793 trace = 61.110 Pam = 240 Norl fact = 45.577 trace = 61.350 Pam = 250 Norl fact = 47.419 trace = 61.576 Pam = 260 Norl fact = 49.322 trace = 61.791 Pam = 270 Norl fact = 51.287 trace = 61.996 Pam = 280 Norl fact = 53.318 trace = 62.191 Pam = 290 Norl fact = 55.415 trace = 62.380 Pam = 300 Norl fact = 57.582 trace = 62.563 test -d /build/reproducible-path/spaln-3.0.2+dfsg/debian/tmp/usr/share/spaln/seqdb || mkdir -p /build/reproducible-path/spaln-3.0.2+dfsg/debian/tmp/usr/share/spaln/seqdb make[2]: Leaving directory '/build/reproducible-path/spaln-3.0.2+dfsg/src' make[1]: Leaving directory '/build/reproducible-path/spaln-3.0.2+dfsg' dh_install -O--sourcedirectory=src install -m0755 -d debian/spaln//usr cp --reflink=auto -a debian/tmp/usr/bin debian/spaln//usr/ install -m0755 -d debian/spaln-data//usr cp --reflink=auto -a debian/tmp/usr/share debian/spaln-data//usr/ dh_installdocs -O--sourcedirectory=src install -m0755 -d debian/spaln/usr/share/doc/spaln install -m0755 -d debian/spaln/usr/share/doc/spaln cp --reflink=auto -a ./README.md debian/spaln/usr/share/doc/spaln cp --reflink=auto -a ./debian/README.test debian/spaln/usr/share/doc/spaln cp --reflink=auto -a ./debian/tests/run-unit-test debian/spaln/usr/share/doc/spaln chmod -R u\+rw,go=rX debian/spaln/usr/share/doc install -p -m0644 debian/README.Debian debian/spaln/usr/share/doc/spaln/README.Debian install -p -m0644 debian/copyright debian/spaln/usr/share/doc/spaln/copyright install -m0755 -d debian/spaln-data/usr/share/doc/spaln-data install -p -m0644 debian/copyright debian/spaln-data/usr/share/doc/spaln-data/copyright dh_installchangelogs -O--sourcedirectory=src install -m0755 -d debian/spaln-data/usr/share/doc/spaln-data install -p -m0644 debian/.debhelper/generated/spaln-data/dh_installchangelogs.dch.trimmed debian/spaln-data/usr/share/doc/spaln-data/changelog.Debian install -m0755 -d debian/spaln/usr/share/doc/spaln install -p -m0644 debian/.debhelper/generated/spaln/dh_installchangelogs.dch.trimmed debian/spaln/usr/share/doc/spaln/changelog.Debian dh_installman -O--sourcedirectory=src install -m0755 -d debian/spaln/usr/share/man/man1/ install -p -m0644 ./sortgrcd.1 debian/spaln/usr/share/man/man1/sortgrcd.1 install -m0755 -d debian/spaln/usr/share/man/man1/ install -p -m0644 ./spaln.1 debian/spaln/usr/share/man/man1/spaln.1 man-recode --to-code UTF-8 --suffix .dh-new debian/spaln/usr/share/man/man1/sortgrcd.1 man-recode --to-code UTF-8 --suffix .dh-new debian/spaln/usr/share/man/man1/spaln.1 mv debian/spaln/usr/share/man/man1/sortgrcd.1.dh-new debian/spaln/usr/share/man/man1/sortgrcd.1 chmod 0644 -- debian/spaln/usr/share/man/man1/sortgrcd.1 mv debian/spaln/usr/share/man/man1/spaln.1.dh-new debian/spaln/usr/share/man/man1/spaln.1 chmod 0644 -- debian/spaln/usr/share/man/man1/spaln.1 dh_installsystemduser -O--sourcedirectory=src dh_perl -O--sourcedirectory=src mv debian/spaln-data.substvars.new debian/spaln-data.substvars dh_link -O--sourcedirectory=src dh_strip_nondeterminism -O--sourcedirectory=src Using 1707770215 as canonical time Normalizing debian/spaln-data/usr/share/spaln/seqdb/dictdisc.faa.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/spaln-data/usr/share/spaln/seqdb/dictdisc.cf.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/spaln-data/usr/share/spaln/seqdb/dictdisc_g.gf.gz using File::StripNondeterminism::handlers::gzip dh_compress -O--sourcedirectory=src cd debian/spaln-data cd debian/spaln chmod a-x usr/share/doc/spaln/README.md usr/share/doc/spaln/changelog.Debian usr/share/man/man1/sortgrcd.1 usr/share/man/man1/spaln.1 chmod a-x usr/share/doc/spaln-data/changelog.Debian gzip -9nf usr/share/doc/spaln/README.md usr/share/doc/spaln/changelog.Debian usr/share/man/man1/sortgrcd.1 usr/share/man/man1/spaln.1 gzip -9nf usr/share/doc/spaln-data/changelog.Debian cd '/build/reproducible-path/spaln-3.0.2+dfsg' cd '/build/reproducible-path/spaln-3.0.2+dfsg' dh_fixperms -O--sourcedirectory=src find debian/spaln ! -type l -a -true -a -true -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s find debian/spaln-data ! -type l -a -true -a -true -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s find debian/spaln/usr/share/doc -type f -a -true -a ! -regex 'debian/spaln/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644 find debian/spaln/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 find debian/spaln-data/usr/share/doc -type f -a -true -a ! -regex 'debian/spaln-data/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644 find debian/spaln/usr/share/man -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/spaln-data/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 find debian/spaln -type f \( -name '*.so.*' -o -name '*.so' -o -name '*.la' -o -name '*.a' -o -name '*.js' -o -name '*.css' -o -name '*.scss' -o -name '*.sass' -o -name '*.jpeg' -o -name '*.jpg' -o -name '*.png' -o -name '*.gif' -o -name '*.cmxs' -o -name '*.node' \) -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/spaln/usr/bin -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod a+x find debian/spaln-data -type f \( -name '*.so.*' -o -name '*.so' -o -name '*.la' -o -name '*.a' -o -name '*.js' -o -name '*.css' -o -name '*.scss' -o -name '*.sass' -o -name '*.jpeg' -o -name '*.jpg' -o -name '*.png' -o -name '*.gif' -o -name '*.cmxs' -o -name '*.node' \) -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 dh_missing -O--sourcedirectory=src dh_dwz -a -O--sourcedirectory=src install -m0755 -d debian/spaln/usr/lib/debug/.dwz/x86_64-linux-gnu dwz -mdebian/spaln/usr/lib/debug/.dwz/x86_64-linux-gnu/spaln.debug -M/usr/lib/debug/.dwz/x86_64-linux-gnu/spaln.debug -- debian/spaln/usr/bin/makdbs debian/spaln/usr/bin/makmdm debian/spaln/usr/bin/sortgrcd debian/spaln/usr/bin/spaln objcopy --compress-debug-sections debian/spaln/usr/lib/debug/.dwz/x86_64-linux-gnu/spaln.debug chmod 0644 -- debian/spaln/usr/lib/debug/.dwz/x86_64-linux-gnu/spaln.debug dh_strip -a -O--sourcedirectory=src install -m0755 -d debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/73 objcopy --only-keep-debug --compress-debug-sections debian/spaln/usr/bin/makdbs debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/73/40bc199a5f8e10a0be882a00e00ba63b2bba6c.debug chmod 0644 -- debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/73/40bc199a5f8e10a0be882a00e00ba63b2bba6c.debug strip --remove-section=.comment --remove-section=.note debian/spaln/usr/bin/makdbs objcopy --add-gnu-debuglink debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/73/40bc199a5f8e10a0be882a00e00ba63b2bba6c.debug debian/spaln/usr/bin/makdbs install -m0755 -d debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/4b objcopy --only-keep-debug --compress-debug-sections debian/spaln/usr/bin/spaln debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/4b/28624680981e068f327a5b76222e57c27af7eb.debug chmod 0644 -- debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/4b/28624680981e068f327a5b76222e57c27af7eb.debug strip --remove-section=.comment --remove-section=.note debian/spaln/usr/bin/spaln objcopy --add-gnu-debuglink debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/4b/28624680981e068f327a5b76222e57c27af7eb.debug debian/spaln/usr/bin/spaln install -m0755 -d debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/51 objcopy --only-keep-debug --compress-debug-sections debian/spaln/usr/bin/sortgrcd debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/51/e0933efbd67860080412e11109152359be9e6c.debug chmod 0644 -- debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/51/e0933efbd67860080412e11109152359be9e6c.debug strip --remove-section=.comment --remove-section=.note debian/spaln/usr/bin/sortgrcd objcopy --add-gnu-debuglink debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/51/e0933efbd67860080412e11109152359be9e6c.debug debian/spaln/usr/bin/sortgrcd install -m0755 -d debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/29 objcopy --only-keep-debug --compress-debug-sections debian/spaln/usr/bin/makmdm debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/29/d99a14fea223f4d2582e3d6d5c289d00a8932b.debug chmod 0644 -- debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/29/d99a14fea223f4d2582e3d6d5c289d00a8932b.debug strip --remove-section=.comment --remove-section=.note debian/spaln/usr/bin/makmdm objcopy --add-gnu-debuglink debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/29/d99a14fea223f4d2582e3d6d5c289d00a8932b.debug debian/spaln/usr/bin/makmdm install -m0755 -d debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.dwz cp --reflink=auto -a debian/spaln/usr/lib/debug/.dwz/x86_64-linux-gnu debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.dwz rm -fr debian/spaln/usr/lib/debug/.dwz rmdir -p --ignore-fail-on-non-empty debian/spaln/usr/lib/debug install -m0755 -d debian/.debhelper/spaln/dbgsym-root/usr/share/doc ln -s spaln debian/.debhelper/spaln/dbgsym-root/usr/share/doc/spaln-dbgsym install -m0755 -d debian/.debhelper/spaln dh_makeshlibs -a -O--sourcedirectory=src rm -f debian/spaln/DEBIAN/shlibs dh_shlibdeps -a -O--sourcedirectory=src install -m0755 -d debian/spaln/DEBIAN dpkg-shlibdeps -Tdebian/spaln.substvars debian/spaln/usr/bin/makdbs debian/spaln/usr/bin/spaln debian/spaln/usr/bin/sortgrcd debian/spaln/usr/bin/makmdm dh_installdeb -O--sourcedirectory=src install -m0755 -d debian/spaln/DEBIAN install -m0755 -d debian/spaln-data/DEBIAN dh_gencontrol -O--sourcedirectory=src install -m0755 -d debian/spaln-data/DEBIAN echo misc:Depends= >> debian/spaln-data.substvars echo misc:Pre-Depends= >> debian/spaln-data.substvars dpkg-gencontrol -pspaln-data -ldebian/changelog -Tdebian/spaln-data.substvars -cdebian/control -Pdebian/spaln-data install -m0755 -d debian/spaln/DEBIAN echo misc:Depends= >> debian/spaln.substvars echo misc:Pre-Depends= >> debian/spaln.substvars install -m0755 -d debian/.debhelper/spaln/dbgsym-root/DEBIAN dpkg-gencontrol -pspaln -ldebian/changelog -Tdebian/spaln.substvars -cdebian/control -Pdebian/.debhelper/spaln/dbgsym-root -UPre-Depends -URecommends -USuggests -UEnhances -UProvides -UEssential -UConflicts -DPriority=optional -UHomepage -UImportant -DAuto-Built-Package=debug-symbols -UProtected -UBuilt-Using -UStatic-Built-Using -DPackage=spaln-dbgsym -DDepends="spaln (= \${binary:Version})" -DDescription="debug symbols for spaln" -DBuild-Ids="29d99a14fea223f4d2582e3d6d5c289d00a8932b 4b28624680981e068f327a5b76222e57c27af7eb 51e0933efbd67860080412e11109152359be9e6c 7340bc199a5f8e10a0be882a00e00ba63b2bba6c" -DSection=debug -UMulti-Arch -UReplaces -UBreaks chmod 0644 -- debian/.debhelper/spaln/dbgsym-root/DEBIAN/control dpkg-gencontrol -pspaln -ldebian/changelog -Tdebian/spaln.substvars -cdebian/control -Pdebian/spaln dpkg-gencontrol: warning: package spaln-data: substitution variable ${perl:Depends} unused, but is defined chmod 0644 -- debian/spaln-data/DEBIAN/control chmod 0644 -- debian/spaln/DEBIAN/control dh_md5sums -O--sourcedirectory=src install -m0755 -d debian/spaln/DEBIAN install -m0755 -d debian/spaln-data/DEBIAN cd debian/spaln >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums cd debian/spaln-data >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums chmod 0644 -- debian/spaln/DEBIAN/md5sums install -m0755 -d debian/.debhelper/spaln/dbgsym-root/DEBIAN cd debian/.debhelper/spaln/dbgsym-root >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums chmod 0644 -- debian/.debhelper/spaln/dbgsym-root/DEBIAN/md5sums chmod 0644 -- debian/spaln-data/DEBIAN/md5sums dh_builddeb -O--sourcedirectory=src dpkg-deb --root-owner-group --build debian/spaln .. dpkg-deb --root-owner-group --build debian/.debhelper/spaln/dbgsym-root .. dpkg-deb --root-owner-group --build debian/spaln-data .. dpkg-deb: building package 'spaln' in '../spaln_3.0.2+dfsg-2_amd64.deb'. dpkg-deb: building package 'spaln-dbgsym' in '../spaln-dbgsym_3.0.2+dfsg-2_amd64.deb'. dpkg-deb: building package 'spaln-data' in '../spaln-data_3.0.2+dfsg-2_all.deb'. dpkg-genbuildinfo --build=binary -O../spaln_3.0.2+dfsg-2_amd64.buildinfo dpkg-genchanges --build=binary -O../spaln_3.0.2+dfsg-2_amd64.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/919712/tmp/hooks/B01_cleanup starting I: user script /srv/workspace/pbuilder/919712/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/919712 and its subdirectories I: Current time: Sun Nov 2 00:33:05 +14 2025 I: pbuilder-time-stamp: 1761993185 + false + set +x Sat Nov 1 10:33:05 UTC 2025 I: Signing ./b2/spaln_3.0.2+dfsg-2_amd64.buildinfo as spaln_3.0.2+dfsg-2_amd64.buildinfo.asc Sat Nov 1 10:33:05 UTC 2025 I: Signed ./b2/spaln_3.0.2+dfsg-2_amd64.buildinfo as ./b2/spaln_3.0.2+dfsg-2_amd64.buildinfo.asc Sat Nov 1 10:33:05 UTC 2025 - build #2 for spaln/unstable/amd64 on ionos1-amd64 done. Starting cleanup. All cleanup done. Sat Nov 1 10:33:05 UTC 2025 - reproducible_build.sh stopped running as /tmp/jenkins-script-HQRYDgtR, removing. /srv/reproducible-results/rbuild-debian/r-b-build.1WvqLAiB: total 88 drwxrwxr-x 2 jenkins jenkins 4096 Nov 1 10:31 b1 drwxrwxr-x 2 jenkins jenkins 4096 Nov 1 10:33 b2 -rw------- 1 jenkins jenkins 71702 Nov 1 10:31 rbuildlog.MoW1HZJ -rw-rw-r-- 1 jenkins jenkins 2224 Feb 12 2024 spaln_3.0.2+dfsg-2.dsc /srv/reproducible-results/rbuild-debian/r-b-build.1WvqLAiB/b1: total 23208 -rw-r--r-- 1 jenkins jenkins 68077 Nov 1 10:31 build.log -rw-r--r-- 1 jenkins jenkins 19478864 Nov 1 10:31 spaln-data_3.0.2+dfsg-2_all.deb -rw-r--r-- 1 jenkins jenkins 3554892 Nov 1 10:31 spaln-dbgsym_3.0.2+dfsg-2_amd64.deb -rw-r--r-- 1 jenkins jenkins 6124 Nov 1 10:31 spaln_3.0.2+dfsg-2.debian.tar.xz -rw-r--r-- 1 jenkins jenkins 2224 Nov 1 10:31 spaln_3.0.2+dfsg-2.dsc -rw-r--r-- 1 jenkins jenkins 5197 Nov 1 10:31 spaln_3.0.2+dfsg-2_amd64.buildinfo -rw-rw-r-- 1 jenkins jenkins 6079 Nov 1 10:31 spaln_3.0.2+dfsg-2_amd64.buildinfo.asc -rw-r--r-- 1 jenkins jenkins 1771 Nov 1 10:31 spaln_3.0.2+dfsg-2_amd64.changes -rw-r--r-- 1 jenkins jenkins 581956 Nov 1 10:31 spaln_3.0.2+dfsg-2_amd64.deb -rw-r--r-- 1 jenkins jenkins 1258 Nov 1 10:31 spaln_3.0.2+dfsg-2_source.changes /srv/reproducible-results/rbuild-debian/r-b-build.1WvqLAiB/b2: total 20936 -rw-rw-r-- 1 jenkins jenkins 53419 Nov 1 10:33 build.log -rw-r--r-- 1 jenkins jenkins 19478864 Nov 1 10:33 spaln-data_3.0.2+dfsg-2_all.deb -rw-r--r-- 1 jenkins jenkins 1525824 Nov 1 10:33 spaln-dbgsym_3.0.2+dfsg-2_amd64.deb -rw-r--r-- 1 jenkins jenkins 6124 Nov 1 10:33 spaln_3.0.2+dfsg-2.debian.tar.xz -rw-r--r-- 1 jenkins jenkins 2224 Nov 1 10:33 spaln_3.0.2+dfsg-2.dsc -rw-rw-r-- 1 jenkins jenkins 5205 Nov 1 10:33 spaln_3.0.2+dfsg-2_amd64.buildinfo -rw-rw-r-- 1 jenkins jenkins 6087 Nov 1 10:33 spaln_3.0.2+dfsg-2_amd64.buildinfo.asc -rw-rw-r-- 1 jenkins jenkins 1771 Nov 1 10:33 spaln_3.0.2+dfsg-2_amd64.changes -rw-r--r-- 1 jenkins jenkins 335856 Nov 1 10:33 spaln_3.0.2+dfsg-2_amd64.deb -rw-rw-r-- 1 jenkins jenkins 1258 Nov 1 10:33 spaln_3.0.2+dfsg-2_source.changes Sat Nov 1 10:33:05 UTC 2025 I: Deleting $TMPDIR on ionos1-amd64.debian.net. Sat Nov 1 10:33:05 UTC 2025 I: spaln_3.0.2+dfsg-2_amd64.changes: Format: 1.8 Date: Mon, 12 Feb 2024 21:36:55 +0100 Source: spaln Binary: spaln spaln-data spaln-dbgsym Architecture: all amd64 Version: 3.0.2+dfsg-2 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Andreas Tille Description: spaln - splicing-aware transcript-alignment to genomic DNA spaln-data - splicing-aware transcript-alignment to genomic DNA (data) Closes: 1063798 Changes: spaln (3.0.2+dfsg-2) unstable; urgency=medium . * Team upload. * Fix portability for arm64 Closes: #1063798 Checksums-Sha1: aafe1f28cb7f7c5ec49edf5846d3ca136ad46d4b 19478864 spaln-data_3.0.2+dfsg-2_all.deb fe89c5d7084cd1535e67ef1f682b5b2b4db453a6 3554892 spaln-dbgsym_3.0.2+dfsg-2_amd64.deb ba77acfb425019e01a8eb9970dafd1703a08a787 5197 spaln_3.0.2+dfsg-2_amd64.buildinfo c12dcf28c2253295dd8ed5f42babc1f948e246db 581956 spaln_3.0.2+dfsg-2_amd64.deb Checksums-Sha256: fa2c9f24c178e069005330e59f33443a79c7a962d0de31c9da08420298a6e09b 19478864 spaln-data_3.0.2+dfsg-2_all.deb b2e07e0aa9607c7387cf43361d0ef51e41d4e3ce0c330f9e9b2e762832550266 3554892 spaln-dbgsym_3.0.2+dfsg-2_amd64.deb 5a9e868ae14110577215632356e25206594719031f624cf0f62e85ba5845ceb6 5197 spaln_3.0.2+dfsg-2_amd64.buildinfo 4ef7e065a3456cbe85ec65564e66e67a0d2d174f0156d771c238011337d98d9f 581956 spaln_3.0.2+dfsg-2_amd64.deb Files: 87ca3a8b817c4ea176f11d634a55be93 19478864 science optional spaln-data_3.0.2+dfsg-2_all.deb 2560ca9f76d622eaa94c9477f5e4226b 3554892 debug optional spaln-dbgsym_3.0.2+dfsg-2_amd64.deb 01b8349b062f446a54fec35c4be03c15 5197 science optional spaln_3.0.2+dfsg-2_amd64.buildinfo 80825aa602037a943980326ab0b2367c 581956 science optional spaln_3.0.2+dfsg-2_amd64.deb removed '/var/lib/jenkins/userContent/reproducible/debian/rbuild/unstable/amd64/spaln_3.0.2+dfsg-2.rbuild.log' removed '/var/lib/jenkins/userContent/reproducible/debian/rbuild/unstable/amd64/spaln_3.0.2+dfsg-2.rbuild.log.gz' removed '/var/lib/jenkins/userContent/reproducible/debian/logs/unstable/amd64/spaln_3.0.2+dfsg-2.build1.log.gz' removed '/var/lib/jenkins/userContent/reproducible/debian/logs/unstable/amd64/spaln_3.0.2+dfsg-2.build2.log.gz' removed '/var/lib/jenkins/userContent/reproducible/debian/buildinfo/unstable/amd64/spaln_3.0.2+dfsg-2_amd64.buildinfo' removed '/var/lib/jenkins/userContent/reproducible/debian/logdiffs/unstable/amd64/spaln_3.0.2+dfsg-2.diff.gz' Diff of the two buildlogs: -- --- b1/build.log 2025-11-01 10:31:20.816505649 +0000 +++ b2/build.log 2025-11-01 10:33:05.524622790 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Fri Dec 4 04:52:28 -12 2026 -I: pbuilder-time-stamp: 1796403148 +I: Current time: Sun Nov 2 00:31:22 +14 2025 +I: pbuilder-time-stamp: 1761993082 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz] I: copying local configuration @@ -26,53 +26,85 @@ dpkg-source: info: applying add_path_to_testscript.patch I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/863081/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/919712/tmp/hooks/D01_modify_environment starting +debug: Running on ionos1-amd64. +I: Changing host+domainname to test build reproducibility +I: Adding a custom variable just for the fun of it... +I: Changing /bin/sh to bash +'/bin/sh' -> '/bin/bash' +lrwxrwxrwx 1 root root 9 Nov 1 10:31 /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/919712/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/919712/tmp/hooks/D02_print_environment starting I: set - BUILDDIR='/build/reproducible-path' - BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' - BUILDUSERNAME='pbuilder1' - BUILD_ARCH='amd64' - DEBIAN_FRONTEND='noninteractive' - DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=42 ' - DISTRIBUTION='unstable' - HOME='/root' - HOST_ARCH='amd64' + BASH=/bin/sh + BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:globskipdots:hostcomplete:interactive_comments:patsub_replacement:progcomp:promptvars:sourcepath + BASH_ALIASES=() + BASH_ARGC=() + BASH_ARGV=() + BASH_CMDS=() + BASH_LINENO=([0]="12" [1]="0") + BASH_LOADABLES_PATH=/usr/local/lib/bash:/usr/lib/bash:/opt/local/lib/bash:/usr/pkg/lib/bash:/opt/pkg/lib/bash:. + BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") + BASH_VERSINFO=([0]="5" [1]="3" [2]="3" [3]="1" [4]="release" [5]="x86_64-pc-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=amd64 + DEBIAN_FRONTEND=noninteractive + DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=40 nocheck' + DIRSTACK=() + DISTRIBUTION=unstable + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=x86_64 + HOST_ARCH=amd64 IFS=' ' - INVOCATION_ID='999d2a0493744673860098011e341305' - 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='863081' - PS1='# ' - PS2='> ' + INVOCATION_ID=bdcf0e342af7403e9795e40625495439 + LANG=C + LANGUAGE=et_EE:et + LC_ALL=C + MACHTYPE=x86_64-pc-linux-gnu + MAIL=/var/mail/root + OPTERR=1 + OPTIND=1 + OSTYPE=linux-gnu + PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path + PBCURRENTCOMMANDLINEOPERATION=build + PBUILDER_OPERATION=build + PBUILDER_PKGDATADIR=/usr/share/pbuilder + PBUILDER_PKGLIBDIR=/usr/lib/pbuilder + PBUILDER_SYSCONFDIR=/etc + PIPESTATUS=([0]="0") + POSIXLY_CORRECT=y + PPID=919712 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.1WvqLAiB/pbuilderrc_Ld1X --distribution unstable --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.1WvqLAiB/b1 --logfile b1/build.log spaln_3.0.2+dfsg-2.dsc' - SUDO_GID='111' - SUDO_HOME='/var/lib/jenkins' - SUDO_UID='106' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - _='/usr/bin/systemd-run' - http_proxy='http://213.165.73.152:3128' + PWD=/ + SHELL=/bin/bash + SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix + SHLVL=3 + SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.1WvqLAiB/pbuilderrc_lwB4 --distribution unstable --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.1WvqLAiB/b2 --logfile b2/build.log spaln_3.0.2+dfsg-2.dsc' + SUDO_GID=110 + SUDO_HOME=/var/lib/jenkins + SUDO_UID=105 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' + http_proxy=http://46.16.76.132:3128 I: uname -a - Linux ionos15-amd64 6.12.48+deb13-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.12.48-1 (2025-09-20) x86_64 GNU/Linux + Linux i-capture-the-hostname 6.12.48+deb13-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.12.48-1 (2025-09-20) x86_64 GNU/Linux I: ls -l /bin - lrwxrwxrwx 1 root root 7 Aug 10 2025 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/863081/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 Aug 10 12:30 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/919712/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -145,7 +177,7 @@ Get: 31 http://deb.debian.org/debian unstable/main amd64 libgsl28 amd64 2.8+dfsg-5.1 [1068 kB] Get: 32 http://deb.debian.org/debian unstable/main amd64 libgsl-dev amd64 2.8+dfsg-5.1 [1336 kB] Get: 33 http://deb.debian.org/debian unstable/main amd64 zlib1g-dev amd64 1:1.3.dfsg+really1.3.1-1+b1 [920 kB] -Fetched 14.7 MB in 0s (104 MB/s) +Fetched 14.7 MB in 1s (23.8 MB/s) Preconfiguring packages ... Selecting previously unselected package sensible-utils. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19862 files and directories currently installed.) @@ -292,7 +324,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/spaln-3.0.2+dfsg/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../spaln_3.0.2+dfsg-2_source.changes +I: user script /srv/workspace/pbuilder/919712/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for unstable +I: user script /srv/workspace/pbuilder/919712/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/spaln-3.0.2+dfsg/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-genchanges -S > ../spaln_3.0.2+dfsg-2_source.changes dpkg-buildpackage: info: source package spaln dpkg-buildpackage: info: source version 3.0.2+dfsg-2 dpkg-buildpackage: info: source distribution unstable @@ -339,7 +375,7 @@ debian/rules override_dh_auto_build make[1]: Entering directory '/build/reproducible-path/spaln-3.0.2+dfsg' dh_auto_build -- table_dir=/usr/share/spaln/table alndbs_dir=/usr/share/spaln/seqdb exec_prefix=/usr/bin - cd src && make -j42 table_dir=/usr/share/spaln/table alndbs_dir=/usr/share/spaln/seqdb exec_prefix=/usr/bin + cd src && make -j40 table_dir=/usr/share/spaln/table alndbs_dir=/usr/share/spaln/seqdb exec_prefix=/usr/bin make[2]: Entering directory '/build/reproducible-path/spaln-3.0.2+dfsg/src' x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c blksrc.cc x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c aln2.cc @@ -352,30 +388,32 @@ x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c fwd2d1.cc x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c fwd2h1.cc x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c fwd2s1.cc -cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ -cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c bitpat.cc +cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c eijunc.cc cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c seq.cc +cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c simmtx.cc cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ -x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c sqpr.cc cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ +cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ +x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c sqpr.cc x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c utilseq.cc cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c vmf.cc cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ +cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c wln.cc cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c boyer_moore.cc cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ -x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c clib.cc cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ +x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c clib.cc x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c iolib.cc -cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c mfile.cc cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ +cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c sets.cc x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c supprime.cc cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ @@ -389,8 +427,6 @@ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ -cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ -cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ seq.cc: In function 'void reportseq(Seq**, int)': seq.cc:483:50: warning: format '%p' expects argument of type 'void*', but argument 9 has type 'int*' [-Wformat=] 483 | printf("%d\t%d\t%d\t%d\t%d\t%d\t%p\t%p\n", i + 1, @@ -410,9 +446,9 @@ fwd2b1.o fwd2d1.o fwd2h1.o fwd2s1.o bitpat.o eijunc.o \ seq.o simmtx.o sqpr.o utilseq.o vmf.o wln.o boyer_moore.o x86_64-linux-gnu-ranlib sblib.a +x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -o spaln spaln.cc blksrc.o sblib.a clib.a -lpthread -lm -lz -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -o sortgrcd sortgrcd.cc sblib.a clib.a -lpthread -lm -lz -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -o makdbs makdbs.cc sblib.a clib.a -lpthread -lm -lz -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now -x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -o spaln spaln.cc blksrc.o sblib.a clib.a -lpthread -lm -lz -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ @@ -438,59 +474,7 @@ | ^ make[2]: Leaving directory '/build/reproducible-path/spaln-3.0.2+dfsg/src' make[1]: Leaving directory '/build/reproducible-path/spaln-3.0.2+dfsg' - dh_auto_test -O--sourcedirectory=src - cd src && make -j42 test TESTSUITEFLAGS="-j42 --verbose" VERBOSE=1 -make[1]: Entering directory '/build/reproducible-path/spaln-3.0.2+dfsg/src' -x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c autocomp.cc -x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c extcds.cc -x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c montseq.cc -x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c pattern.cc -x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c resite.cc -x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -o exinpot exinpot.cc sblib.a clib.a -lpthread -lm -lz -x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -o kmers kmers.cc sblib.a clib.a -lpthread -lm -lz -x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -o npssm npssm.cc sblib.a clib.a -lpthread -lm -lz -x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c utn.cc -x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c ildpdf.cc -x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c decompild.cc -x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c fitild.cc -cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ -cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ -cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ -cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ -cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ -cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ -cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ -cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ -cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ -cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ -cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ -cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ -x86_64-linux-gnu-ar rc ublib.a autocomp.o extcds.o \ -montseq.o pattern.o resite.o -x86_64-linux-gnu-ranlib ublib.a -x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -o dvn dvn.cc ublib.a sblib.a clib.a -lpthread -lm -lz -x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -o rdn rdn.cc ublib.a sblib.a clib.a -lpthread -lm -lz -cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ -cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ -x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -o fitild -DMAIN fitild.cc ildpdf.o clib.a -lpthread -lm -lz \ --L/usr/local/lib -lm -lgsl -lgslcblas -x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -o compild compild.cc ildpdf.o clib.a -lpthread -lm -lz -lm -lgsl -lgslcblas -x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -o decompild decompild.o ildpdf.o fitild.o clib.a -lpthread -lm -lz -lgsl -lgslcblas -x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -o plotild plotild.cc ildpdf.o clib.a -lpthread -lm -lz -lm -lgsl -lgslcblas -cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ -cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ -cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ -plotild.cc: In function 'getiprms': -plotild.cc:136:49: warning: argument 1 value '18446744073709551615' exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] - 136 | IldPrm* ipprm = new IldPrm[nn + nprm + 1]; - | ^ -/usr/include/c++/15/new:140:26: note: in a call to allocation function 'operator new []' declared here - 140 | _GLIBCXX_NODISCARD void* operator new[](std::size_t) - | ^ -x86_64-linux-gnu-g++ -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spaln-3.0.2+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -o utn utn.o ublib.a sblib.a clib.a -lpthread -lm -lz -please make install before test -make[1]: Leaving directory '/build/reproducible-path/spaln-3.0.2+dfsg/src' - rm -fr -- /tmp/dh-xdg-rundir-xOFHeocr +dh: command-omitted: The call to "dh_auto_test -O--sourcedirectory=src" was omitted due to "DEB_BUILD_OPTIONS=nocheck" create-stamp debian/debhelper-build-stamp dh_testroot -O--sourcedirectory=src dh_prep -O--sourcedirectory=src @@ -501,7 +485,7 @@ make[1]: Entering directory '/build/reproducible-path/spaln-3.0.2+dfsg' dh_auto_install -- table_dir=/usr/share/spaln/table alndbs_dir=/usr/share/spaln/seqdb exec_prefix=/usr/bin install -m0755 -d /build/reproducible-path/spaln-3.0.2\+dfsg/debian/tmp - cd src && make -j42 install DESTDIR=/build/reproducible-path/spaln-3.0.2\+dfsg/debian/tmp AM_UPDATE_INFO_DIR=no table_dir=/usr/share/spaln/table alndbs_dir=/usr/share/spaln/seqdb exec_prefix=/usr/bin + cd src && make -j40 install DESTDIR=/build/reproducible-path/spaln-3.0.2\+dfsg/debian/tmp AM_UPDATE_INFO_DIR=no table_dir=/usr/share/spaln/table alndbs_dir=/usr/share/spaln/seqdb exec_prefix=/usr/bin make[2]: Entering directory '/build/reproducible-path/spaln-3.0.2+dfsg/src' test -d /build/reproducible-path/spaln-3.0.2+dfsg/debian/tmp/usr/bin || mkdir -p /build/reproducible-path/spaln-3.0.2+dfsg/debian/tmp/usr/bin if [ -s spaln ]; then\ @@ -580,10 +564,10 @@ install -p -m0644 ./spaln.1 debian/spaln/usr/share/man/man1/spaln.1 man-recode --to-code UTF-8 --suffix .dh-new debian/spaln/usr/share/man/man1/sortgrcd.1 man-recode --to-code UTF-8 --suffix .dh-new debian/spaln/usr/share/man/man1/spaln.1 - mv debian/spaln/usr/share/man/man1/spaln.1.dh-new debian/spaln/usr/share/man/man1/spaln.1 - chmod 0644 -- debian/spaln/usr/share/man/man1/spaln.1 mv debian/spaln/usr/share/man/man1/sortgrcd.1.dh-new debian/spaln/usr/share/man/man1/sortgrcd.1 chmod 0644 -- debian/spaln/usr/share/man/man1/sortgrcd.1 + mv debian/spaln/usr/share/man/man1/spaln.1.dh-new debian/spaln/usr/share/man/man1/spaln.1 + chmod 0644 -- debian/spaln/usr/share/man/man1/spaln.1 dh_installsystemduser -O--sourcedirectory=src dh_perl -O--sourcedirectory=src mv debian/spaln-data.substvars.new debian/spaln-data.substvars @@ -594,12 +578,12 @@ Normalizing debian/spaln-data/usr/share/spaln/seqdb/dictdisc.cf.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/spaln-data/usr/share/spaln/seqdb/dictdisc_g.gf.gz using File::StripNondeterminism::handlers::gzip dh_compress -O--sourcedirectory=src - cd debian/spaln cd debian/spaln-data - chmod a-x usr/share/doc/spaln-data/changelog.Debian + cd debian/spaln chmod a-x usr/share/doc/spaln/README.md usr/share/doc/spaln/changelog.Debian usr/share/man/man1/sortgrcd.1 usr/share/man/man1/spaln.1 - gzip -9nf usr/share/doc/spaln-data/changelog.Debian + chmod a-x usr/share/doc/spaln-data/changelog.Debian gzip -9nf usr/share/doc/spaln/README.md usr/share/doc/spaln/changelog.Debian usr/share/man/man1/sortgrcd.1 usr/share/man/man1/spaln.1 + gzip -9nf usr/share/doc/spaln-data/changelog.Debian cd '/build/reproducible-path/spaln-3.0.2+dfsg' cd '/build/reproducible-path/spaln-3.0.2+dfsg' dh_fixperms -O--sourcedirectory=src @@ -607,89 +591,39 @@ find debian/spaln-data ! -type l -a -true -a -true -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s find debian/spaln/usr/share/doc -type f -a -true -a ! -regex 'debian/spaln/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644 find debian/spaln/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 + find debian/spaln-data/usr/share/doc -type f -a -true -a ! -regex 'debian/spaln-data/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644 find debian/spaln/usr/share/man -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 + find debian/spaln-data/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 find debian/spaln -type f \( -name '*.so.*' -o -name '*.so' -o -name '*.la' -o -name '*.a' -o -name '*.js' -o -name '*.css' -o -name '*.scss' -o -name '*.sass' -o -name '*.jpeg' -o -name '*.jpg' -o -name '*.png' -o -name '*.gif' -o -name '*.cmxs' -o -name '*.node' \) -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/spaln/usr/bin -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod a+x - find debian/spaln-data/usr/share/doc -type f -a -true -a ! -regex 'debian/spaln-data/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644 - find debian/spaln-data/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 find debian/spaln-data -type f \( -name '*.so.*' -o -name '*.so' -o -name '*.la' -o -name '*.a' -o -name '*.js' -o -name '*.css' -o -name '*.scss' -o -name '*.sass' -o -name '*.jpeg' -o -name '*.jpg' -o -name '*.png' -o -name '*.gif' -o -name '*.cmxs' -o -name '*.node' \) -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 dh_missing -O--sourcedirectory=src dh_dwz -a -O--sourcedirectory=src install -m0755 -d debian/spaln/usr/lib/debug/.dwz/x86_64-linux-gnu - dwz -mdebian/spaln/usr/lib/debug/.dwz/x86_64-linux-gnu/spaln.debug -M/usr/lib/debug/.dwz/x86_64-linux-gnu/spaln.debug -- debian/spaln/usr/bin/compild debian/spaln/usr/bin/decompild debian/spaln/usr/bin/dvn debian/spaln/usr/bin/exinpot debian/spaln/usr/bin/fitild debian/spaln/usr/bin/kmers debian/spaln/usr/bin/makdbs debian/spaln/usr/bin/makmdm debian/spaln/usr/bin/npssm debian/spaln/usr/bin/plotild debian/spaln/usr/bin/rdn debian/spaln/usr/bin/sortgrcd debian/spaln/usr/bin/spaln debian/spaln/usr/bin/utn + dwz -mdebian/spaln/usr/lib/debug/.dwz/x86_64-linux-gnu/spaln.debug -M/usr/lib/debug/.dwz/x86_64-linux-gnu/spaln.debug -- debian/spaln/usr/bin/makdbs debian/spaln/usr/bin/makmdm debian/spaln/usr/bin/sortgrcd debian/spaln/usr/bin/spaln objcopy --compress-debug-sections debian/spaln/usr/lib/debug/.dwz/x86_64-linux-gnu/spaln.debug chmod 0644 -- debian/spaln/usr/lib/debug/.dwz/x86_64-linux-gnu/spaln.debug dh_strip -a -O--sourcedirectory=src - install -m0755 -d debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/8e - objcopy --only-keep-debug --compress-debug-sections debian/spaln/usr/bin/decompild debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/8e/bb3be747acc125665534a61da5ce123a2868ee.debug - chmod 0644 -- debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/8e/bb3be747acc125665534a61da5ce123a2868ee.debug - strip --remove-section=.comment --remove-section=.note debian/spaln/usr/bin/decompild - objcopy --add-gnu-debuglink debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/8e/bb3be747acc125665534a61da5ce123a2868ee.debug debian/spaln/usr/bin/decompild - install -m0755 -d debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/51 - objcopy --only-keep-debug --compress-debug-sections debian/spaln/usr/bin/sortgrcd debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/51/e0933efbd67860080412e11109152359be9e6c.debug - chmod 0644 -- debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/51/e0933efbd67860080412e11109152359be9e6c.debug - strip --remove-section=.comment --remove-section=.note debian/spaln/usr/bin/sortgrcd - objcopy --add-gnu-debuglink debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/51/e0933efbd67860080412e11109152359be9e6c.debug debian/spaln/usr/bin/sortgrcd + install -m0755 -d debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/73 + objcopy --only-keep-debug --compress-debug-sections debian/spaln/usr/bin/makdbs debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/73/40bc199a5f8e10a0be882a00e00ba63b2bba6c.debug + chmod 0644 -- debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/73/40bc199a5f8e10a0be882a00e00ba63b2bba6c.debug + strip --remove-section=.comment --remove-section=.note debian/spaln/usr/bin/makdbs + objcopy --add-gnu-debuglink debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/73/40bc199a5f8e10a0be882a00e00ba63b2bba6c.debug debian/spaln/usr/bin/makdbs install -m0755 -d debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/4b objcopy --only-keep-debug --compress-debug-sections debian/spaln/usr/bin/spaln debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/4b/28624680981e068f327a5b76222e57c27af7eb.debug chmod 0644 -- debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/4b/28624680981e068f327a5b76222e57c27af7eb.debug strip --remove-section=.comment --remove-section=.note debian/spaln/usr/bin/spaln objcopy --add-gnu-debuglink debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/4b/28624680981e068f327a5b76222e57c27af7eb.debug debian/spaln/usr/bin/spaln - install -m0755 -d debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/37 - objcopy --only-keep-debug --compress-debug-sections debian/spaln/usr/bin/rdn debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/37/38c2274380a836c5a8b2cc3e0ab8a799e4dd46.debug - chmod 0644 -- debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/37/38c2274380a836c5a8b2cc3e0ab8a799e4dd46.debug - strip --remove-section=.comment --remove-section=.note debian/spaln/usr/bin/rdn - objcopy --add-gnu-debuglink debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/37/38c2274380a836c5a8b2cc3e0ab8a799e4dd46.debug debian/spaln/usr/bin/rdn - install -m0755 -d debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/61 - objcopy --only-keep-debug --compress-debug-sections debian/spaln/usr/bin/npssm debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/61/d04921b830808f190684eb71427ba39110b1e9.debug - chmod 0644 -- debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/61/d04921b830808f190684eb71427ba39110b1e9.debug - strip --remove-section=.comment --remove-section=.note debian/spaln/usr/bin/npssm - objcopy --add-gnu-debuglink debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/61/d04921b830808f190684eb71427ba39110b1e9.debug debian/spaln/usr/bin/npssm + install -m0755 -d debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/51 + objcopy --only-keep-debug --compress-debug-sections debian/spaln/usr/bin/sortgrcd debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/51/e0933efbd67860080412e11109152359be9e6c.debug + chmod 0644 -- debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/51/e0933efbd67860080412e11109152359be9e6c.debug + strip --remove-section=.comment --remove-section=.note debian/spaln/usr/bin/sortgrcd + objcopy --add-gnu-debuglink debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/51/e0933efbd67860080412e11109152359be9e6c.debug debian/spaln/usr/bin/sortgrcd install -m0755 -d debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/29 objcopy --only-keep-debug --compress-debug-sections debian/spaln/usr/bin/makmdm debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/29/d99a14fea223f4d2582e3d6d5c289d00a8932b.debug chmod 0644 -- debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/29/d99a14fea223f4d2582e3d6d5c289d00a8932b.debug strip --remove-section=.comment --remove-section=.note debian/spaln/usr/bin/makmdm objcopy --add-gnu-debuglink debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/29/d99a14fea223f4d2582e3d6d5c289d00a8932b.debug debian/spaln/usr/bin/makmdm - install -m0755 -d debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/75 - objcopy --only-keep-debug --compress-debug-sections debian/spaln/usr/bin/dvn debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/75/cbf4ed37cfa0ba7feced9e3cae5ee72352bdd9.debug - chmod 0644 -- debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/75/cbf4ed37cfa0ba7feced9e3cae5ee72352bdd9.debug - strip --remove-section=.comment --remove-section=.note debian/spaln/usr/bin/dvn - objcopy --add-gnu-debuglink debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/75/cbf4ed37cfa0ba7feced9e3cae5ee72352bdd9.debug debian/spaln/usr/bin/dvn - install -m0755 -d debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/b6 - objcopy --only-keep-debug --compress-debug-sections debian/spaln/usr/bin/fitild debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/b6/3de20d098226a3bd3da4410e00cac79cb6de48.debug - chmod 0644 -- debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/b6/3de20d098226a3bd3da4410e00cac79cb6de48.debug - strip --remove-section=.comment --remove-section=.note debian/spaln/usr/bin/fitild - objcopy --add-gnu-debuglink debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/b6/3de20d098226a3bd3da4410e00cac79cb6de48.debug debian/spaln/usr/bin/fitild - install -m0755 -d debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/4d - objcopy --only-keep-debug --compress-debug-sections debian/spaln/usr/bin/compild debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/4d/aafcfc8dc3ddca15a7c2c2dab72b9f16f0f44b.debug - chmod 0644 -- debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/4d/aafcfc8dc3ddca15a7c2c2dab72b9f16f0f44b.debug - strip --remove-section=.comment --remove-section=.note debian/spaln/usr/bin/compild - objcopy --add-gnu-debuglink debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/4d/aafcfc8dc3ddca15a7c2c2dab72b9f16f0f44b.debug debian/spaln/usr/bin/compild - install -m0755 -d debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/03 - objcopy --only-keep-debug --compress-debug-sections debian/spaln/usr/bin/plotild debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/03/441782c06c568cedfb72f489642bd5facfb234.debug - chmod 0644 -- debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/03/441782c06c568cedfb72f489642bd5facfb234.debug - strip --remove-section=.comment --remove-section=.note debian/spaln/usr/bin/plotild - objcopy --add-gnu-debuglink debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/03/441782c06c568cedfb72f489642bd5facfb234.debug debian/spaln/usr/bin/plotild - install -m0755 -d debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/1f - objcopy --only-keep-debug --compress-debug-sections debian/spaln/usr/bin/exinpot debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/1f/20c684542531d643099ab09a4b159566270385.debug - chmod 0644 -- debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/1f/20c684542531d643099ab09a4b159566270385.debug - strip --remove-section=.comment --remove-section=.note debian/spaln/usr/bin/exinpot - objcopy --add-gnu-debuglink debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/1f/20c684542531d643099ab09a4b159566270385.debug debian/spaln/usr/bin/exinpot - install -m0755 -d debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/e0 - objcopy --only-keep-debug --compress-debug-sections debian/spaln/usr/bin/kmers debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/e0/58c2ac7ff3025586832397aff07603a29f5633.debug - chmod 0644 -- debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/e0/58c2ac7ff3025586832397aff07603a29f5633.debug - strip --remove-section=.comment --remove-section=.note debian/spaln/usr/bin/kmers - objcopy --add-gnu-debuglink debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/e0/58c2ac7ff3025586832397aff07603a29f5633.debug debian/spaln/usr/bin/kmers - install -m0755 -d debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/39 - objcopy --only-keep-debug --compress-debug-sections debian/spaln/usr/bin/utn debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/39/1a9ca55db6aca7b70f77ac3cf84cc4962d7b55.debug - chmod 0644 -- debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/39/1a9ca55db6aca7b70f77ac3cf84cc4962d7b55.debug - strip --remove-section=.comment --remove-section=.note debian/spaln/usr/bin/utn - objcopy --add-gnu-debuglink debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/39/1a9ca55db6aca7b70f77ac3cf84cc4962d7b55.debug debian/spaln/usr/bin/utn - install -m0755 -d debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/73 - objcopy --only-keep-debug --compress-debug-sections debian/spaln/usr/bin/makdbs debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/73/40bc199a5f8e10a0be882a00e00ba63b2bba6c.debug - chmod 0644 -- debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/73/40bc199a5f8e10a0be882a00e00ba63b2bba6c.debug - strip --remove-section=.comment --remove-section=.note debian/spaln/usr/bin/makdbs - objcopy --add-gnu-debuglink debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/73/40bc199a5f8e10a0be882a00e00ba63b2bba6c.debug debian/spaln/usr/bin/makdbs install -m0755 -d debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.dwz cp --reflink=auto -a debian/spaln/usr/lib/debug/.dwz/x86_64-linux-gnu debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.dwz rm -fr debian/spaln/usr/lib/debug/.dwz @@ -701,7 +635,7 @@ rm -f debian/spaln/DEBIAN/shlibs dh_shlibdeps -a -O--sourcedirectory=src install -m0755 -d debian/spaln/DEBIAN - dpkg-shlibdeps -Tdebian/spaln.substvars debian/spaln/usr/bin/decompild debian/spaln/usr/bin/sortgrcd debian/spaln/usr/bin/spaln debian/spaln/usr/bin/rdn debian/spaln/usr/bin/npssm debian/spaln/usr/bin/makmdm debian/spaln/usr/bin/dvn debian/spaln/usr/bin/fitild debian/spaln/usr/bin/compild debian/spaln/usr/bin/plotild debian/spaln/usr/bin/exinpot debian/spaln/usr/bin/kmers debian/spaln/usr/bin/utn debian/spaln/usr/bin/makdbs + dpkg-shlibdeps -Tdebian/spaln.substvars debian/spaln/usr/bin/makdbs debian/spaln/usr/bin/spaln debian/spaln/usr/bin/sortgrcd debian/spaln/usr/bin/makmdm dh_installdeb -O--sourcedirectory=src install -m0755 -d debian/spaln/DEBIAN install -m0755 -d debian/spaln-data/DEBIAN @@ -714,15 +648,15 @@ echo misc:Depends= >> debian/spaln.substvars echo misc:Pre-Depends= >> debian/spaln.substvars install -m0755 -d debian/.debhelper/spaln/dbgsym-root/DEBIAN - dpkg-gencontrol -pspaln -ldebian/changelog -Tdebian/spaln.substvars -cdebian/control -Pdebian/.debhelper/spaln/dbgsym-root -UPre-Depends -URecommends -USuggests -UEnhances -UProvides -UEssential -UConflicts -DPriority=optional -UHomepage -UImportant -DAuto-Built-Package=debug-symbols -UProtected -UBuilt-Using -UStatic-Built-Using -DPackage=spaln-dbgsym -DDepends="spaln (= \${binary:Version})" -DDescription="debug symbols for spaln" -DBuild-Ids="03441782c06c568cedfb72f489642bd5facfb234 1f20c684542531d643099ab09a4b159566270385 29d99a14fea223f4d2582e3d6d5c289d00a8932b 3738c2274380a836c5a8b2cc3e0ab8a799e4dd46 391a9ca55db6aca7b70f77ac3cf84cc4962d7b55 4b28624680981e068f327a5b76222e57c27af7eb 4daafcfc8dc3ddca15a7c2c2dab72b9f16f0f44b 51e0933efbd67860080412e11109152359be9e6c 61d04921b830808f190684eb71427ba39110b1e9 7340bc199a5f8e10a0be882a00e00ba63b2bba6c 75cbf4ed37cfa0ba7feced9e3cae5ee72352bdd9 8ebb3be747acc125665534a61da5ce123a2868ee b63de20d098226a3bd3da4410e00cac79cb6de48 e058c2ac7ff3025586832397aff07603a29f5633" -DSection=debug -UMulti-Arch -UReplaces -UBreaks + dpkg-gencontrol -pspaln -ldebian/changelog -Tdebian/spaln.substvars -cdebian/control -Pdebian/.debhelper/spaln/dbgsym-root -UPre-Depends -URecommends -USuggests -UEnhances -UProvides -UEssential -UConflicts -DPriority=optional -UHomepage -UImportant -DAuto-Built-Package=debug-symbols -UProtected -UBuilt-Using -UStatic-Built-Using -DPackage=spaln-dbgsym -DDepends="spaln (= \${binary:Version})" -DDescription="debug symbols for spaln" -DBuild-Ids="29d99a14fea223f4d2582e3d6d5c289d00a8932b 4b28624680981e068f327a5b76222e57c27af7eb 51e0933efbd67860080412e11109152359be9e6c 7340bc199a5f8e10a0be882a00e00ba63b2bba6c" -DSection=debug -UMulti-Arch -UReplaces -UBreaks chmod 0644 -- debian/.debhelper/spaln/dbgsym-root/DEBIAN/control dpkg-gencontrol -pspaln -ldebian/changelog -Tdebian/spaln.substvars -cdebian/control -Pdebian/spaln dpkg-gencontrol: warning: package spaln-data: substitution variable ${perl:Depends} unused, but is defined chmod 0644 -- debian/spaln-data/DEBIAN/control chmod 0644 -- debian/spaln/DEBIAN/control dh_md5sums -O--sourcedirectory=src - install -m0755 -d debian/spaln-data/DEBIAN install -m0755 -d debian/spaln/DEBIAN + install -m0755 -d debian/spaln-data/DEBIAN cd debian/spaln >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums cd debian/spaln-data >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums chmod 0644 -- debian/spaln/DEBIAN/md5sums @@ -744,12 +678,14 @@ 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/919712/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/919712/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/863081 and its subdirectories -I: Current time: Fri Dec 4 04:54:20 -12 2026 -I: pbuilder-time-stamp: 1796403260 +I: removing directory /srv/workspace/pbuilder/919712 and its subdirectories +I: Current time: Sun Nov 2 00:33:05 +14 2025 +I: pbuilder-time-stamp: 1761993185 Compressing the 2nd log... /var/lib/jenkins/userContent/reproducible/debian/logdiffs/unstable/amd64/spaln_3.0.2+dfsg-2.diff: 85.5% -- replaced with /var/lib/jenkins/userContent/reproducible/debian/logdiffs/unstable/amd64/spaln_3.0.2+dfsg-2.diff.gz b2/build.log: 81.5% -- replaced with stdout Compressing the 1st log... b1/build.log: 84.8% -- replaced with stdout Sat Nov 1 10:33:06 UTC 2025 I: diffoscope 306 will be used to compare the two builds: ++ date -u +%s + DIFFOSCOPE_STAMP=/var/log/reproducible-builds/diffoscope_stamp_spaln_unstable_amd64_1761993186 + touch /var/log/reproducible-builds/diffoscope_stamp_spaln_unstable_amd64_1761993186 + RESULT=0 + systemd-run '--description=diffoscope on spaln/3.0.2+dfsg-2 in unstable/amd64' --slice=rb-build-diffoscope.slice -u rb-diffoscope-amd64_4-73423 '--property=SuccessExitStatus=1 124' --user --send-sighup --pipe --wait -E TMPDIR timeout 155m nice schroot --directory /srv/reproducible-results/rbuild-debian/r-b-build.1WvqLAiB --run-session -c jenkins-reproducible-unstable-diffoscope-cc14fc8d-bf35-45d4-a646-230d426d61ec -- sh -c 'export TMPDIR=/srv/reproducible-results/rbuild-debian/r-b-build.1WvqLAiB/dbd-tmp-zfs4fzF ; timeout 150m diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.1WvqLAiB/spaln_3.0.2+dfsg-2.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.1WvqLAiB/spaln_3.0.2+dfsg-2.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.1WvqLAiB/spaln_3.0.2+dfsg-2.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.1WvqLAiB/b1/spaln_3.0.2+dfsg-2_amd64.changes /srv/reproducible-results/rbuild-debian/r-b-build.1WvqLAiB/b2/spaln_3.0.2+dfsg-2_amd64.changes' + false + set +x Running as unit: rb-diffoscope-amd64_4-73423.service; invocation ID: c843717af86f479fa88436cca9defb16 # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.1WvqLAiB/spaln_3.0.2+dfsg-2.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.1WvqLAiB/spaln_3.0.2+dfsg-2.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.1WvqLAiB/spaln_3.0.2+dfsg-2.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.1WvqLAiB/b1/spaln_3.0.2+dfsg-2_amd64.changes /srv/reproducible-results/rbuild-debian/r-b-build.1WvqLAiB/b2/spaln_3.0.2+dfsg-2_amd64.changes ## close_archive (total time: 0.000s) 0.000s 26 calls diffoscope.comparators.xz.XzContainer 0.000s 10 calls diffoscope.comparators.deb.DebContainer 0.000s 12 calls diffoscope.comparators.deb.DebTarContainer 0.000s 14 calls diffoscope.comparators.tar.TarContainer ## command (total time: 56.238s) 23.913s 4540 calls readelf 23.508s 498 calls diff 7.159s 880 calls objdump 0.863s 8 calls objcopy 0.659s 26 calls xz 0.097s 99 calls strings 0.019s 3 calls cmp 0.019s 3 calls cmp (external) 0.001s 12 calls cmp (internal) ## compare_files (cumulative) (total time: 282.918s) 51.325s 1 call abc.DotChangesFile 51.279s 2 calls abc.DebFile 51.247s 4 calls abc.XzFile 51.019s 2 calls abc.DebDataTarFile 50.833s 9 calls abc.ElfFile 25.882s 40 calls diffoscope.comparators.elf.ElfCodeSection 1.069s 143 calls diffoscope.comparators.elf.ElfSection 0.173s 13 calls diffoscope.comparators.elf.ElfStringSection 0.044s 2 calls abc.TarFile 0.025s 4 calls diffoscope.comparators.elf.MonkeyPatchedElfSection 0.015s 2 calls abc.TextFile 0.006s 2 calls abc.Md5sumsFile ## container_extract (total time: 0.780s) 0.660s 26 calls diffoscope.comparators.xz.XzContainer 0.057s 62 calls diffoscope.comparators.deb.DebTarContainer 0.057s 30 calls diffoscope.comparators.deb.DebContainer 0.007s 18 calls diffoscope.comparators.tar.TarContainer ## diff (total time: 2.074s) 2.074s 1104 calls linediff ## has_same_content_as (total time: 0.022s) 0.017s 3 calls abc.DebFile 0.003s 9 calls abc.ElfFile 0.001s 143 calls diffoscope.comparators.elf.ElfSection 0.000s 4 calls abc.TextFile 0.000s 40 calls diffoscope.comparators.elf.ElfCodeSection 0.000s 2 calls abc.TarFile 0.000s 1 call diffoscope.comparators.binary.FilesystemFile 0.000s 4 calls abc.Md5sumsFile 0.000s 4 calls abc.XzFile 0.000s 1 call diffoscope.comparators.utils.libarchive.LibarchiveSymlink 0.000s 1 call abc.DotChangesFile 0.000s 2 calls abc.DebDataTarFile 0.000s 13 calls diffoscope.comparators.elf.ElfStringSection 0.000s 4 calls diffoscope.comparators.elf.MonkeyPatchedElfSection ## main (total time: 57.226s) 57.225s 2 calls outputs 0.001s 1 call cleanup ## open_archive (total time: 0.000s) 0.000s 26 calls diffoscope.comparators.xz.XzContainer 0.000s 14 calls diffoscope.comparators.tar.TarContainer 0.000s 12 calls diffoscope.comparators.deb.DebTarContainer 0.000s 10 calls diffoscope.comparators.deb.DebContainer ## output (total time: 5.538s) 4.565s 1 call html 0.554s 1 call text 0.419s 1 call json ## recognizes (total time: 0.871s) 0.509s 974 calls diffoscope.comparators.utils.archive.ArchiveMember 0.171s 2800 calls diffoscope.comparators.utils.libarchive.LibarchiveMember 0.145s 12 calls diffoscope.comparators.binary.FilesystemFile 0.046s 324 calls diffoscope.comparators.debian.DebControlMember ## specialize (total time: 0.436s) 0.436s 230 calls specialize Finished with result: success Main processes terminated with: code=exited, status=1/FAILURE Service runtime: 57.477s CPU time consumed: 1min 9.800s Memory peak: 609.5M (swap: 0B) Sat Nov 1 10:34:04 UTC 2025 W: Diffoscope claims the build is reproducible, but there is a diffoscope file. Please investigate. Sat Nov 1 10:34:04 UTC 2025 E: spaln failed to build reproducibly in unstable on amd64. Sat Nov 1 10:34:23 UTC 2025 I: https://tests.reproducible-builds.org/debian/unstable/amd64/spaln : reproducible ➤ FTBR INSERT 0 1 INSERT 0 1 DELETE 1 [2025-11-01 10:34:23] INFO: Starting at 2025-11-01 10:34:23.734911 [2025-11-01 10:34:23] INFO: Generating the pages of 1 package(s) [2025-11-01 10:34:23] CRITICAL: https://tests.reproducible-builds.org/debian/unstable/amd64/spaln didn't produce a buildlog, even though it has been built. [2025-11-01 10:34:23] INFO: Finished at 2025-11-01 10:34:23.987438, took: 0:00:00.252530 Sat Nov 1 10:34:24 UTC 2025 - successfully updated the database and updated https://tests.reproducible-builds.org/debian/rb-pkg/unstable/amd64/spaln.html [2025-11-01 10:34:24] INFO: Starting at 2025-11-01 10:34:24.288082 [2025-11-01 10:34:24] INFO: Scheduling packages in amd64/unstable [2025-11-01 10:34:24] INFO: jenkins scheduled in unstable/amd64, reason: 'reproducible ➤ FTBR': spaln [2025-11-01 10:34:24] INFO: Finished at 2025-11-01 10:34:24.669232, took: 0:00:00.381156 Sat Nov 1 10:34:24 UTC 2025 I: Removing signed spaln_3.0.2+dfsg-2_amd64.buildinfo.asc files: removed './b1/spaln_3.0.2+dfsg-2_amd64.buildinfo.asc' removed './b2/spaln_3.0.2+dfsg-2_amd64.buildinfo.asc' 1761993264 amd64 unstable spaln Starting cleanup. /var/lib/jenkins/userContent/reproducible/debian/rbuild/unstable/amd64/spaln_3.0.2+dfsg-2.rbuild.log: 81.8% -- replaced with /var/lib/jenkins/userContent/reproducible/debian/rbuild/unstable/amd64/spaln_3.0.2+dfsg-2.rbuild.log.gz [2025-11-01 10:34:24] INFO: Starting at 2025-11-01 10:34:24.989596 [2025-11-01 10:34:25] INFO: Generating the pages of 1 package(s) [2025-11-01 10:34:25] INFO: Finished at 2025-11-01 10:34:25.241890, took: 0:00:00.252297 All cleanup done. Sat Nov 1 10:34:25 UTC 2025 - total duration: 0h 5m 3s. Sat Nov 1 10:34:25 UTC 2025 - reproducible_build.sh stopped running as /tmp/jenkins-script-VxtkLATQ, removing. Finished with result: success Main processes terminated with: code=exited, status=0/SUCCESS Service runtime: 5min 4.698s CPU time consumed: 22.365s Memory peak: 180M (swap: 0B)