Wed May 15 01:33:50 UTC 2024 I: starting to build spaln/trixie/arm64 on jenkins on '2024-05-15 01:33' Wed May 15 01:33:50 UTC 2024 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/arm64_11/44031/console.log Wed May 15 01:33:50 UTC 2024 I: Downloading source for trixie/spaln=3.0.2+dfsg-2 --2024-05-15 01:33:50-- 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% 310M=0s 2024-05-15 01:33:50 (310 MB/s) - ‘spaln_3.0.2+dfsg-2.dsc’ saved [2224/2224] Wed May 15 01:33:51 UTC 2024 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----- Wed May 15 01:33:51 UTC 2024 I: Checking whether the package is not for us Wed May 15 01:33:51 UTC 2024 I: Starting 1st build on remote node codethink03-arm64.debian.net. Wed May 15 01:33:51 UTC 2024 I: Preparing to do remote build '1' on codethink03-arm64.debian.net. Wed May 15 01:35:35 UTC 2024 I: Deleting $TMPDIR on codethink03-arm64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Mon Jun 16 19:56:53 -12 2025 I: pbuilder-time-stamp: 1750147013 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/trixie-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 gpgv: Signature made Mon Feb 12 20:47:17 2024 gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key 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/3732646/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build/reproducible-path' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='arm64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 ' DISTRIBUTION='trixie' HOME='/root' HOST_ARCH='arm64' IFS=' ' INVOCATION_ID='993fbb89049b432797d1609c3b9e00b7' 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='3732646' 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.CjtxOOJT/pbuilderrc_N81c --distribution trixie --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.CjtxOOJT/b1 --logfile b1/build.log spaln_3.0.2+dfsg-2.dsc' SUDO_GID='109' SUDO_UID='104' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://192.168.101.4:3128' I: uname -a Linux codethink03-arm64 6.1.0-21-cloud-arm64 #1 SMP Debian 6.1.90-1 (2024-05-03) aarch64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Jun 15 17:48 /bin -> usr/bin I: user script /srv/workspace/pbuilder/3732646/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: arm64 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13), 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 ... 19744 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} libgsl27{a} libgslcblas0{a} libicu72{a} libmagic-mgc{a} libmagic1t64{a} libpipeline1{a} libsub-override-perl{a} libtool{a} libuchardet0{a} libxml2{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, 34 newly installed, 0 to remove and 0 not upgraded. Need to get 21.5 MB of archives. After unpacking 87.9 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian trixie/main arm64 sensible-utils all 0.0.22 [22.4 kB] Get: 2 http://deb.debian.org/debian trixie/main arm64 libmagic-mgc arm64 1:5.45-3 [314 kB] Get: 3 http://deb.debian.org/debian trixie/main arm64 libmagic1t64 arm64 1:5.45-3 [100 kB] Get: 4 http://deb.debian.org/debian trixie/main arm64 file arm64 1:5.45-3 [43.0 kB] Get: 5 http://deb.debian.org/debian trixie/main arm64 gettext-base arm64 0.21-14+b1 [160 kB] Get: 6 http://deb.debian.org/debian trixie/main arm64 libuchardet0 arm64 0.0.8-1+b1 [69.0 kB] Get: 7 http://deb.debian.org/debian trixie/main arm64 groff-base arm64 1.23.0-4 [1130 kB] Get: 8 http://deb.debian.org/debian trixie/main arm64 bsdextrautils arm64 2.40-8 [93.0 kB] Get: 9 http://deb.debian.org/debian trixie/main arm64 libpipeline1 arm64 1.5.7-2 [36.5 kB] Get: 10 http://deb.debian.org/debian trixie/main arm64 man-db arm64 2.12.1-1 [1394 kB] Get: 11 http://deb.debian.org/debian trixie/main arm64 m4 arm64 1.4.19-4 [277 kB] Get: 12 http://deb.debian.org/debian trixie/main arm64 autoconf all 2.71-3 [332 kB] Get: 13 http://deb.debian.org/debian trixie/main arm64 autotools-dev all 20220109.1 [51.6 kB] Get: 14 http://deb.debian.org/debian trixie/main arm64 automake all 1:1.16.5-1.3 [823 kB] Get: 15 http://deb.debian.org/debian trixie/main arm64 autopoint all 0.21-14 [496 kB] Get: 16 http://deb.debian.org/debian trixie/main arm64 libdebhelper-perl all 13.15.3 [88.0 kB] Get: 17 http://deb.debian.org/debian trixie/main arm64 libtool all 2.4.7-7 [517 kB] Get: 18 http://deb.debian.org/debian trixie/main arm64 dh-autoreconf all 20 [17.1 kB] Get: 19 http://deb.debian.org/debian trixie/main arm64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 20 http://deb.debian.org/debian trixie/main arm64 libsub-override-perl all 0.10-1 [10.6 kB] Get: 21 http://deb.debian.org/debian trixie/main arm64 libfile-stripnondeterminism-perl all 1.13.1-1 [19.4 kB] Get: 22 http://deb.debian.org/debian trixie/main arm64 dh-strip-nondeterminism all 1.13.1-1 [8620 B] Get: 23 http://deb.debian.org/debian trixie/main arm64 libelf1t64 arm64 0.191-1+b1 [187 kB] Get: 24 http://deb.debian.org/debian trixie/main arm64 dwz arm64 0.15-1+b1 [102 kB] Get: 25 http://deb.debian.org/debian trixie/main arm64 libicu72 arm64 72.1-4+b1 [9224 kB] Get: 26 http://deb.debian.org/debian trixie/main arm64 libxml2 arm64 2.9.14+dfsg-1.3+b3 [624 kB] Get: 27 http://deb.debian.org/debian trixie/main arm64 gettext arm64 0.21-14+b1 [1249 kB] Get: 28 http://deb.debian.org/debian trixie/main arm64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 29 http://deb.debian.org/debian trixie/main arm64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 30 http://deb.debian.org/debian trixie/main arm64 debhelper all 13.15.3 [901 kB] Get: 31 http://deb.debian.org/debian trixie/main arm64 libgslcblas0 arm64 2.7.1+dfsg-6+b1 [72.7 kB] Get: 32 http://deb.debian.org/debian trixie/main arm64 libgsl27 arm64 2.7.1+dfsg-6+b1 [822 kB] Get: 33 http://deb.debian.org/debian trixie/main arm64 libgsl-dev arm64 2.7.1+dfsg-6+b1 [1039 kB] Get: 34 http://deb.debian.org/debian trixie/main arm64 zlib1g-dev arm64 1:1.3.dfsg-3.1 [915 kB] Fetched 21.5 MB in 0s (144 MB/s) debconf: delaying package configuration, since apt-utils is not installed 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 ... 19744 files and directories currently installed.) Preparing to unpack .../00-sensible-utils_0.0.22_all.deb ... Unpacking sensible-utils (0.0.22) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../01-libmagic-mgc_1%3a5.45-3_arm64.deb ... Unpacking libmagic-mgc (1:5.45-3) ... Selecting previously unselected package libmagic1t64:arm64. Preparing to unpack .../02-libmagic1t64_1%3a5.45-3_arm64.deb ... Unpacking libmagic1t64:arm64 (1:5.45-3) ... Selecting previously unselected package file. Preparing to unpack .../03-file_1%3a5.45-3_arm64.deb ... Unpacking file (1:5.45-3) ... Selecting previously unselected package gettext-base. Preparing to unpack .../04-gettext-base_0.21-14+b1_arm64.deb ... Unpacking gettext-base (0.21-14+b1) ... Selecting previously unselected package libuchardet0:arm64. Preparing to unpack .../05-libuchardet0_0.0.8-1+b1_arm64.deb ... Unpacking libuchardet0:arm64 (0.0.8-1+b1) ... Selecting previously unselected package groff-base. Preparing to unpack .../06-groff-base_1.23.0-4_arm64.deb ... Unpacking groff-base (1.23.0-4) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../07-bsdextrautils_2.40-8_arm64.deb ... Unpacking bsdextrautils (2.40-8) ... Selecting previously unselected package libpipeline1:arm64. Preparing to unpack .../08-libpipeline1_1.5.7-2_arm64.deb ... Unpacking libpipeline1:arm64 (1.5.7-2) ... Selecting previously unselected package man-db. Preparing to unpack .../09-man-db_2.12.1-1_arm64.deb ... Unpacking man-db (2.12.1-1) ... Selecting previously unselected package m4. Preparing to unpack .../10-m4_1.4.19-4_arm64.deb ... Unpacking m4 (1.4.19-4) ... Selecting previously unselected package autoconf. Preparing to unpack .../11-autoconf_2.71-3_all.deb ... Unpacking autoconf (2.71-3) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../12-autotools-dev_20220109.1_all.deb ... Unpacking autotools-dev (20220109.1) ... Selecting previously unselected package automake. Preparing to unpack .../13-automake_1%3a1.16.5-1.3_all.deb ... Unpacking automake (1:1.16.5-1.3) ... Selecting previously unselected package autopoint. Preparing to unpack .../14-autopoint_0.21-14_all.deb ... Unpacking autopoint (0.21-14) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../15-libdebhelper-perl_13.15.3_all.deb ... Unpacking libdebhelper-perl (13.15.3) ... Selecting previously unselected package libtool. Preparing to unpack .../16-libtool_2.4.7-7_all.deb ... Unpacking libtool (2.4.7-7) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../17-dh-autoreconf_20_all.deb ... Unpacking dh-autoreconf (20) ... 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 libsub-override-perl. Preparing to unpack .../19-libsub-override-perl_0.10-1_all.deb ... Unpacking libsub-override-perl (0.10-1) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../20-libfile-stripnondeterminism-perl_1.13.1-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.13.1-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../21-dh-strip-nondeterminism_1.13.1-1_all.deb ... Unpacking dh-strip-nondeterminism (1.13.1-1) ... Selecting previously unselected package libelf1t64:arm64. Preparing to unpack .../22-libelf1t64_0.191-1+b1_arm64.deb ... Unpacking libelf1t64:arm64 (0.191-1+b1) ... Selecting previously unselected package dwz. Preparing to unpack .../23-dwz_0.15-1+b1_arm64.deb ... Unpacking dwz (0.15-1+b1) ... Selecting previously unselected package libicu72:arm64. Preparing to unpack .../24-libicu72_72.1-4+b1_arm64.deb ... Unpacking libicu72:arm64 (72.1-4+b1) ... Selecting previously unselected package libxml2:arm64. Preparing to unpack .../25-libxml2_2.9.14+dfsg-1.3+b3_arm64.deb ... Unpacking libxml2:arm64 (2.9.14+dfsg-1.3+b3) ... Selecting previously unselected package gettext. Preparing to unpack .../26-gettext_0.21-14+b1_arm64.deb ... Unpacking gettext (0.21-14+b1) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../27-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 .../28-po-debconf_1.0.21+nmu1_all.deb ... Unpacking po-debconf (1.0.21+nmu1) ... Selecting previously unselected package debhelper. Preparing to unpack .../29-debhelper_13.15.3_all.deb ... Unpacking debhelper (13.15.3) ... Selecting previously unselected package libgslcblas0:arm64. Preparing to unpack .../30-libgslcblas0_2.7.1+dfsg-6+b1_arm64.deb ... Unpacking libgslcblas0:arm64 (2.7.1+dfsg-6+b1) ... Selecting previously unselected package libgsl27:arm64. Preparing to unpack .../31-libgsl27_2.7.1+dfsg-6+b1_arm64.deb ... Unpacking libgsl27:arm64 (2.7.1+dfsg-6+b1) ... Selecting previously unselected package libgsl-dev. Preparing to unpack .../32-libgsl-dev_2.7.1+dfsg-6+b1_arm64.deb ... Unpacking libgsl-dev (2.7.1+dfsg-6+b1) ... Selecting previously unselected package zlib1g-dev:arm64. Preparing to unpack .../33-zlib1g-dev_1%3a1.3.dfsg-3.1_arm64.deb ... Unpacking zlib1g-dev:arm64 (1:1.3.dfsg-3.1) ... Setting up libpipeline1:arm64 (1.5.7-2) ... Setting up libicu72:arm64 (72.1-4+b1) ... Setting up bsdextrautils (2.40-8) ... Setting up libgslcblas0:arm64 (2.7.1+dfsg-6+b1) ... Setting up libmagic-mgc (1:5.45-3) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libdebhelper-perl (13.15.3) ... Setting up libmagic1t64:arm64 (1:5.45-3) ... Setting up gettext-base (0.21-14+b1) ... Setting up libgsl27:arm64 (2.7.1+dfsg-6+b1) ... Setting up m4 (1.4.19-4) ... Setting up file (1:5.45-3) ... Setting up libelf1t64:arm64 (0.191-1+b1) ... Setting up autotools-dev (20220109.1) ... Setting up autopoint (0.21-14) ... Setting up autoconf (2.71-3) ... Setting up zlib1g-dev:arm64 (1:1.3.dfsg-3.1) ... Setting up dwz (0.15-1+b1) ... Setting up sensible-utils (0.0.22) ... Setting up libuchardet0:arm64 (0.0.8-1+b1) ... Setting up libsub-override-perl (0.10-1) ... Setting up libxml2:arm64 (2.9.14+dfsg-1.3+b3) ... Setting up automake (1:1.16.5-1.3) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.13.1-1) ... Setting up gettext (0.21-14+b1) ... Setting up libgsl-dev (2.7.1+dfsg-6+b1) ... Setting up libtool (2.4.7-7) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up dh-strip-nondeterminism (1.13.1-1) ... Setting up groff-base (1.23.0-4) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up man-db (2.12.1-1) ... Not building database; man-db/auto-update is not 'true'. Setting up debhelper (13.15.3) ... Processing triggers for libc-bin (2.38-10) ... 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 arm64 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="aarch64-linux-gnu-ar rc" exec_prefix=/usr/bin table_dir=/usr/share/spaln/table alndbs_dir=/usr/share/spaln/seqdb ./configure OK, CXX=aarch64-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 -mbranch-protection=standard -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 -j12 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' aarch64-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 -mbranch-protection=standard -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c blksrc.cc aarch64-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 -mbranch-protection=standard -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c aln2.cc aarch64-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 -mbranch-protection=standard -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c dbs.cc aarch64-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 -mbranch-protection=standard -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c gaps.cc aarch64-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 -mbranch-protection=standard -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c codepot.cc aarch64-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 -mbranch-protection=standard -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c divseq.cc aarch64-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 -mbranch-protection=standard -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c gsinfo.cc aarch64-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 -mbranch-protection=standard -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c fwd2b1.cc aarch64-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 -mbranch-protection=standard -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c fwd2d1.cc aarch64-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 -mbranch-protection=standard -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c fwd2h1.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++ aarch64-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 -mbranch-protection=standard -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++ 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++ aarch64-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 -mbranch-protection=standard -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++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ aarch64-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 -mbranch-protection=standard -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++ aarch64-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 -mbranch-protection=standard -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c seq.cc aarch64-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 -mbranch-protection=standard -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++ aarch64-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 -mbranch-protection=standard -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++ 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* aarch64-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 -mbranch-protection=standard -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++ aarch64-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 -mbranch-protection=standard -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++ aarch64-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 -mbranch-protection=standard -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++ aarch64-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 -mbranch-protection=standard -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++ aarch64-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 -mbranch-protection=standard -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++ aarch64-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 -mbranch-protection=standard -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++ aarch64-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 -mbranch-protection=standard -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++ aarch64-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 -mbranch-protection=standard -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c sets.cc cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ aarch64-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 -mbranch-protection=standard -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++ aarch64-linux-gnu-ar rc clib.a clib.o iolib.o mfile.o sets.o supprime.o aarch64-linux-gnu-ranlib clib.a aarch64-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 -mbranch-protection=standard -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++ aarch64-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 aarch64-linux-gnu-ranlib sblib.a aarch64-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 -mbranch-protection=standard -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 aarch64-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 -mbranch-protection=standard -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 aarch64-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 -mbranch-protection=standard -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]; | ^~~ 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++/13/new: In function 'spaln_job': /usr/include/c++/13/new:128:26: note: in a call to allocation function 'operator new []' declared here 128 | _GLIBCXX_NODISCARD void* operator new[](std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ 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++/13/new:128:26: note: in a call to allocation function 'operator new []' declared here 128 | _GLIBCXX_NODISCARD void* operator new[](std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ 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 -j12 test "TESTSUITEFLAGS=-j12 --verbose" VERBOSE=1 make[1]: Entering directory '/build/reproducible-path/spaln-3.0.2+dfsg/src' aarch64-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 -mbranch-protection=standard -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c autocomp.cc aarch64-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 -mbranch-protection=standard -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c extcds.cc aarch64-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 -mbranch-protection=standard -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c montseq.cc aarch64-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 -mbranch-protection=standard -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c pattern.cc aarch64-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 -mbranch-protection=standard -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c resite.cc aarch64-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 -mbranch-protection=standard -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -o exinpot exinpot.cc sblib.a clib.a -lpthread -lm -lz aarch64-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 -mbranch-protection=standard -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -o kmers kmers.cc sblib.a clib.a -lpthread -lm -lz aarch64-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 -mbranch-protection=standard -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -o npssm npssm.cc sblib.a clib.a -lpthread -lm -lz aarch64-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 -mbranch-protection=standard -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c utn.cc aarch64-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 -mbranch-protection=standard -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c ildpdf.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++ aarch64-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 -mbranch-protection=standard -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -c decompild.cc cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ aarch64-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 -mbranch-protection=standard -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++ In file included from ildpdf.h:29, from ildpdf.cc:25: dist2.h:36:22: warning: extra ';' [-Wpedantic] 36 | int grp2;; | ^ | - In file included from ildpdf.h:29, from fitild.cc:31: dist2.h:36:22: warning: extra ';' [-Wpedantic] 36 | int grp2;; | ^ | - In file included from ildpdf.h:29, from decompild.cc:29: dist2.h:36:22: warning: extra ';' [-Wpedantic] 36 | int grp2;; | ^ | - aarch64-linux-gnu-ar rc ublib.a autocomp.o extcds.o \ montseq.o pattern.o resite.o aarch64-linux-gnu-ranlib ublib.a aarch64-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 -mbranch-protection=standard -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -o dvn dvn.cc ublib.a sblib.a clib.a -lpthread -lm -lz aarch64-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 -mbranch-protection=standard -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++ aarch64-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 -mbranch-protection=standard -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 aarch64-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 -mbranch-protection=standard -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DM_THREAD=1 -o compild compild.cc ildpdf.o clib.a -lpthread -lm -lz -lm -lgsl -lgslcblas aarch64-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 -mbranch-protection=standard -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 aarch64-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 -mbranch-protection=standard -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++ In file included from ildpdf.h:29, from fitild.cc:31: dist2.h:36:22: warning: extra ';' [-Wpedantic] 36 | int grp2;; | ^ | - In file included from ildpdf.h:29, from plotild.cc:25: dist2.h:36:22: warning: extra ';' [-Wpedantic] 36 | int grp2;; | ^ | - In file included from compild.cc:23: dist2.h:36:22: warning: extra ';' [-Wpedantic] 36 | int grp2;; | ^ | - 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++/13/new:128:26: note: in a call to allocation function 'operator new []' declared here 128 | _GLIBCXX_NODISCARD void* operator new[](std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ aarch64-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 -mbranch-protection=standard -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-NkGmERXl 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 -j12 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 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-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 -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-data/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 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/aarch64-linux-gnu dwz -mdebian/spaln/usr/lib/debug/.dwz/aarch64-linux-gnu/spaln.debug -M/usr/lib/debug/.dwz/aarch64-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/aarch64-linux-gnu/spaln.debug chmod 0644 -- debian/spaln/usr/lib/debug/.dwz/aarch64-linux-gnu/spaln.debug dh_strip -a -O--sourcedirectory=src install -m0755 -d debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/d6 objcopy --only-keep-debug --compress-debug-sections debian/spaln/usr/bin/spaln debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/d6/e8a494e93332141e944df296f29a06a36f4657.debug chmod 0644 -- debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/d6/e8a494e93332141e944df296f29a06a36f4657.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/d6/e8a494e93332141e944df296f29a06a36f4657.debug debian/spaln/usr/bin/spaln install -m0755 -d debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/67 objcopy --only-keep-debug --compress-debug-sections debian/spaln/usr/bin/utn debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/67/a36eb422b34f9097bd9df8e97c7643cceceb73.debug chmod 0644 -- debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/67/a36eb422b34f9097bd9df8e97c7643cceceb73.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/67/a36eb422b34f9097bd9df8e97c7643cceceb73.debug debian/spaln/usr/bin/utn install -m0755 -d debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/70 objcopy --only-keep-debug --compress-debug-sections debian/spaln/usr/bin/sortgrcd debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/70/f7dd30fb0a389774b00f9cb6133526a73594d8.debug chmod 0644 -- debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/70/f7dd30fb0a389774b00f9cb6133526a73594d8.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/70/f7dd30fb0a389774b00f9cb6133526a73594d8.debug debian/spaln/usr/bin/sortgrcd install -m0755 -d debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/d1 objcopy --only-keep-debug --compress-debug-sections debian/spaln/usr/bin/rdn debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/d1/6fb8c31dc2e5c0c50a2929ca47a4876524eb95.debug chmod 0644 -- debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/d1/6fb8c31dc2e5c0c50a2929ca47a4876524eb95.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/d1/6fb8c31dc2e5c0c50a2929ca47a4876524eb95.debug debian/spaln/usr/bin/rdn install -m0755 -d debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/38 objcopy --only-keep-debug --compress-debug-sections debian/spaln/usr/bin/dvn debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/38/eaab3fefa778886f05512010d7abb4091b1138.debug chmod 0644 -- debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/38/eaab3fefa778886f05512010d7abb4091b1138.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/38/eaab3fefa778886f05512010d7abb4091b1138.debug debian/spaln/usr/bin/dvn install -m0755 -d debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/f9 objcopy --only-keep-debug --compress-debug-sections debian/spaln/usr/bin/kmers debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/f9/393fa9177e1a3b02df9d5c1ed48725613e86a4.debug chmod 0644 -- debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/f9/393fa9177e1a3b02df9d5c1ed48725613e86a4.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/f9/393fa9177e1a3b02df9d5c1ed48725613e86a4.debug debian/spaln/usr/bin/kmers install -m0755 -d debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/e9 objcopy --only-keep-debug --compress-debug-sections debian/spaln/usr/bin/npssm debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/e9/e1f8058cbe2e85eaab736072d2c454599a6c8c.debug chmod 0644 -- debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/e9/e1f8058cbe2e85eaab736072d2c454599a6c8c.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/e9/e1f8058cbe2e85eaab736072d2c454599a6c8c.debug debian/spaln/usr/bin/npssm install -m0755 -d debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/23 objcopy --only-keep-debug --compress-debug-sections debian/spaln/usr/bin/plotild debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/23/146244d8e9bfc93a2d3db0c09bce5850607f89.debug chmod 0644 -- debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/23/146244d8e9bfc93a2d3db0c09bce5850607f89.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/23/146244d8e9bfc93a2d3db0c09bce5850607f89.debug debian/spaln/usr/bin/plotild install -m0755 -d debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/6b objcopy --only-keep-debug --compress-debug-sections debian/spaln/usr/bin/exinpot debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/6b/aba08fdce1f09c44fa5da7bfdfada12e629889.debug chmod 0644 -- debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/6b/aba08fdce1f09c44fa5da7bfdfada12e629889.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/6b/aba08fdce1f09c44fa5da7bfdfada12e629889.debug debian/spaln/usr/bin/exinpot install -m0755 -d debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/1d objcopy --only-keep-debug --compress-debug-sections debian/spaln/usr/bin/makdbs debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/1d/8e92583a32a63026f92aab2997c21a80a7b581.debug chmod 0644 -- debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/1d/8e92583a32a63026f92aab2997c21a80a7b581.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/1d/8e92583a32a63026f92aab2997c21a80a7b581.debug debian/spaln/usr/bin/makdbs install -m0755 -d debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/5d objcopy --only-keep-debug --compress-debug-sections debian/spaln/usr/bin/makmdm debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/5d/7051b180970f384b00122217740fa9ec576aa2.debug chmod 0644 -- debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/5d/7051b180970f384b00122217740fa9ec576aa2.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/5d/7051b180970f384b00122217740fa9ec576aa2.debug debian/spaln/usr/bin/makmdm install -m0755 -d debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/af objcopy --only-keep-debug --compress-debug-sections debian/spaln/usr/bin/compild debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/af/27c5a4d2eb06c3bbe16fc3249b7e17e18b26e5.debug chmod 0644 -- debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/af/27c5a4d2eb06c3bbe16fc3249b7e17e18b26e5.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/af/27c5a4d2eb06c3bbe16fc3249b7e17e18b26e5.debug debian/spaln/usr/bin/compild install -m0755 -d debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/cb objcopy --only-keep-debug --compress-debug-sections debian/spaln/usr/bin/fitild debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/cb/3f38e0ae0a922755b359a3958e2be6249df96d.debug chmod 0644 -- debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/cb/3f38e0ae0a922755b359a3958e2be6249df96d.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/cb/3f38e0ae0a922755b359a3958e2be6249df96d.debug debian/spaln/usr/bin/fitild install -m0755 -d debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/b5 objcopy --only-keep-debug --compress-debug-sections debian/spaln/usr/bin/decompild debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/b5/80f5504f6cf09dca6f9707284af19b31c7770f.debug chmod 0644 -- debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.build-id/b5/80f5504f6cf09dca6f9707284af19b31c7770f.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/b5/80f5504f6cf09dca6f9707284af19b31c7770f.debug debian/spaln/usr/bin/decompild install -m0755 -d debian/.debhelper/spaln/dbgsym-root/usr/lib/debug/.dwz cp --reflink=auto -a debian/spaln/usr/lib/debug/.dwz/aarch64-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/spaln debian/spaln/usr/bin/utn debian/spaln/usr/bin/sortgrcd debian/spaln/usr/bin/rdn debian/spaln/usr/bin/dvn debian/spaln/usr/bin/kmers debian/spaln/usr/bin/npssm debian/spaln/usr/bin/plotild debian/spaln/usr/bin/exinpot debian/spaln/usr/bin/makdbs debian/spaln/usr/bin/makmdm debian/spaln/usr/bin/compild debian/spaln/usr/bin/fitild debian/spaln/usr/bin/decompild 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=1d8e92583a32a63026f92aab2997c21a80a7b581 23146244d8e9bfc93a2d3db0c09bce5850607f89 38eaab3fefa778886f05512010d7abb4091b1138 5d7051b180970f384b00122217740fa9ec576aa2 67a36eb422b34f9097bd9df8e97c7643cceceb73 6baba08fdce1f09c44fa5da7bfdfada12e629889 70f7dd30fb0a389774b00f9cb6133526a73594d8 af27c5a4d2eb06c3bbe16fc3249b7e17e18b26e5 b580f5504f6cf09dca6f9707284af19b31c7770f cb3f38e0ae0a922755b359a3958e2be6249df96d d16fb8c31dc2e5c0c50a2929ca47a4876524eb95 d6e8a494e93332141e944df296f29a06a36f4657 e9e1f8058cbe2e85eaab736072d2c454599a6c8c f9393fa9177e1a3b02df9d5c1ed48725613e86a4" -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_arm64.deb'. dpkg-deb: building package 'spaln-dbgsym' in '../spaln-dbgsym_3.0.2+dfsg-2_arm64.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_arm64.buildinfo dpkg-genchanges --build=binary -O../spaln_3.0.2+dfsg-2_arm64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env I: removing directory /srv/workspace/pbuilder/3732646 and its subdirectories I: Current time: Mon Jun 16 19:58:33 -12 2025 I: pbuilder-time-stamp: 1750147113 Wed May 15 01:35:36 UTC 2024 I: 1st build successful. Starting 2nd build on remote node codethink04-arm64.debian.net. Wed May 15 01:35:36 UTC 2024 I: Preparing to do remote build '2' on codethink04-arm64.debian.net. Wed May 15 01:37:25 UTC 2024 I: Deleting $TMPDIR on codethink04-arm64.debian.net. Wed May 15 01:37:26 UTC 2024 I: spaln_3.0.2+dfsg-2_arm64.changes: Format: 1.8 Date: Mon, 12 Feb 2024 21:36:55 +0100 Source: spaln Binary: spaln spaln-data spaln-dbgsym Architecture: all arm64 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: 304799334aca639e5b9aa4f7a26fb44e6217358b 19479720 spaln-data_3.0.2+dfsg-2_all.deb 6bdf8fd660dc1953ddfa66b1ce9061f1fde4417c 3426156 spaln-dbgsym_3.0.2+dfsg-2_arm64.deb d6fd86353e8417cf832cecda2aafa4dbc61f56f4 5517 spaln_3.0.2+dfsg-2_arm64.buildinfo 0ba77bbf95f8468c72bf7972af4ea56cb1feb932 505292 spaln_3.0.2+dfsg-2_arm64.deb Checksums-Sha256: 68a5748753911f6e1b538bc99c859560d7b34347fc058912de8d0d58eb3bb7a6 19479720 spaln-data_3.0.2+dfsg-2_all.deb 475222891d2454d40713577d7339128013c675d5e129569eade1aee9fbe020a3 3426156 spaln-dbgsym_3.0.2+dfsg-2_arm64.deb 285bc860315f91770f978bc3ae3f4bd9d89ba682fcab5dcf99b69e1e75473c8b 5517 spaln_3.0.2+dfsg-2_arm64.buildinfo 8da397074046e3911bcae157b134e8066ac77a1022aa2e4b6f0bf440d7d7e4b3 505292 spaln_3.0.2+dfsg-2_arm64.deb Files: 5722c69bb1145204f7e1eb18c091c2f9 19479720 science optional spaln-data_3.0.2+dfsg-2_all.deb 8cf28d93f1afc75b921351b9ce6a6a62 3426156 debug optional spaln-dbgsym_3.0.2+dfsg-2_arm64.deb c59634086d139bbc82dc373867f1b4d4 5517 science optional spaln_3.0.2+dfsg-2_arm64.buildinfo 3853dc559c1509696aa5ab8eb23beb66 505292 science optional spaln_3.0.2+dfsg-2_arm64.deb Wed May 15 01:37:27 UTC 2024 I: diffoscope 266 will be used to compare the two builds: Running as unit: rb-diffoscope-arm64_11-44031.service # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.CjtxOOJT/spaln_3.0.2+dfsg-2.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.CjtxOOJT/spaln_3.0.2+dfsg-2.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.CjtxOOJT/spaln_3.0.2+dfsg-2.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.CjtxOOJT/b1/spaln_3.0.2+dfsg-2_arm64.changes /srv/reproducible-results/rbuild-debian/r-b-build.CjtxOOJT/b2/spaln_3.0.2+dfsg-2_arm64.changes ## command (total time: 0.000s) 0.000s 1 call cmp (internal) ## has_same_content_as (total time: 0.000s) 0.000s 1 call abc.DotChangesFile ## main (total time: 0.609s) 0.609s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.260s) 0.260s 12 calls diffoscope.comparators.binary.FilesystemFile ## specialize (total time: 0.000s) 0.000s 1 call specialize Finished with result: success Main processes terminated with: code=exited/status=0 Service runtime: 938ms CPU time consumed: 939ms Wed May 15 01:37:28 UTC 2024 I: diffoscope 266 found no differences in the changes files, and a .buildinfo file also exists. Wed May 15 01:37:28 UTC 2024 I: spaln from trixie built successfully and reproducibly on arm64. Wed May 15 01:37:30 UTC 2024 I: Submitting .buildinfo files to external archives: Wed May 15 01:37:30 UTC 2024 I: Submitting 8.0K b1/spaln_3.0.2+dfsg-2_arm64.buildinfo.asc Wed May 15 01:37:31 UTC 2024 I: Submitting 8.0K b2/spaln_3.0.2+dfsg-2_arm64.buildinfo.asc Wed May 15 01:37:31 UTC 2024 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Wed May 15 01:37:31 UTC 2024 I: Done submitting .buildinfo files. Wed May 15 01:37:31 UTC 2024 I: Removing signed spaln_3.0.2+dfsg-2_arm64.buildinfo.asc files: removed './b1/spaln_3.0.2+dfsg-2_arm64.buildinfo.asc' removed './b2/spaln_3.0.2+dfsg-2_arm64.buildinfo.asc'