Mon Apr 29 22:24:28 UTC 2024 I: starting to build libsmithwaterman/trixie/amd64 on jenkins on '2024-04-29 22:24' Mon Apr 29 22:24:28 UTC 2024 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/amd64_38/7352/console.log Mon Apr 29 22:24:28 UTC 2024 I: Downloading source for trixie/libsmithwaterman=0.0+git20160702.2610e25-12 --2024-04-29 22:24:28-- http://deb.debian.org/debian/pool/main/libs/libsmithwaterman/libsmithwaterman_0.0%2bgit20160702.2610e25-12.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2337 (2.3K) [text/prs.lines.tag] Saving to: ‘libsmithwaterman_0.0+git20160702.2610e25-12.dsc’ 0K .. 100% 235M=0s 2024-04-29 22:24:28 (235 MB/s) - ‘libsmithwaterman_0.0+git20160702.2610e25-12.dsc’ saved [2337/2337] Mon Apr 29 22:24:28 UTC 2024 I: libsmithwaterman_0.0+git20160702.2610e25-12.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: libsmithwaterman Binary: libsmithwaterman0, libsmithwaterman-dev, smithwaterman Architecture: any Version: 0.0+git20160702.2610e25-12 Maintainer: Debian Med Packaging Team Uploaders: Andreas Tille Homepage: https://github.com/ekg/smithwaterman Standards-Version: 4.6.0 Vcs-Browser: https://salsa.debian.org/med-team/libsmithwaterman Vcs-Git: https://salsa.debian.org/med-team/libsmithwaterman.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 13), d-shlibs, libdisorder-dev Package-List: libsmithwaterman-dev deb libdevel optional arch=any libsmithwaterman0 deb libs optional arch=any smithwaterman deb science optional arch=any Checksums-Sha1: 6b131fcd61fdcbd2d86ac7ea415983caf3a0e03e 24856 libsmithwaterman_0.0+git20160702.2610e25.orig.tar.xz 5426e9515a47f3fc38f4fb91999c784ea3ac9331 6212 libsmithwaterman_0.0+git20160702.2610e25-12.debian.tar.xz Checksums-Sha256: 6266f043c8a12cad8b1309f620c180fc422a1e9ee9df0163691652fa523f5bd3 24856 libsmithwaterman_0.0+git20160702.2610e25.orig.tar.xz d37cebbe58fa8ab750eff71dcf0ddafe63895ecc254e52c17eb34dcb746b681b 6212 libsmithwaterman_0.0+git20160702.2610e25-12.debian.tar.xz Files: 75f2ad1f67ed481fcd8b8a4178950e5c 24856 libsmithwaterman_0.0+git20160702.2610e25.orig.tar.xz 8ed7f78831dbbd00b613afb87724010a 6212 libsmithwaterman_0.0+git20160702.2610e25-12.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCgAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAmFmktsRHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtED/Q//bygXEryBJWTVDRou3puu6bHWXDrG8D2d 456e7RyCvUXJljUY8fvQF6mYsv7hC/MHuLlKkY5S4lmsA7AU9+FTZ0eyQFfqVBJG XIvAefc5KURSgeDsuVtmf5e2wehlfkl6ecWKJ6VMO67ZXogHkCT+MgHJrc3qc4rK 6Be1uhfhzIP/g8DwaoI+TxHPmyDVfyEjVDZXYYwchWwXlRtfeVopaRNAZPq5zyEl Lnc8sWjpwn9wRyxCwmZaJ9b9tvGiJMO54JgHu+LzHaKYwjFWRBhke7+7E9wykccj VonmSmyzshlt7FSXBU/2uD7awL3giOkzBKbJ2y6c4mFgd4jOF4bKhtQNn5ryLEnp CrOI1tHyN7ztVDFpM2bz1KedQHz4V0NppKm80hMUPIWr5RW52B0bpiMIb/ZNUZpb 8eYnH8qnb08zEbpaSlgoXo+FlTSlY7e4cPGkYPKTn9ti/hpaRStjSt6m7lxH+p9e 0RLswUVu4o0cmm6bl/fhcjby4fu0bC4b5f92CjLbIZYOgCTgEOr3P8TqLNKazgoU cGOVmVscgVFgURmKpep78nmhz9Dbcz7m0yQMxdo5q/Se5UbapSinsyk8KT81loQn BhsDznAKvvojZw1mXVNI5LO0R0QinfNiwrk5D8auMxn4NYw9bd9UVWyf9gHTMorf KsOR5zmnVWc= =r5ar -----END PGP SIGNATURE----- Mon Apr 29 22:24:28 UTC 2024 I: Checking whether the package is not for us Mon Apr 29 22:24:28 UTC 2024 I: Starting 1st build on remote node infom02-amd64.debian.net. Mon Apr 29 22:24:28 UTC 2024 I: Preparing to do remote build '1' on infom02-amd64.debian.net. Mon Apr 29 22:25:49 UTC 2024 I: Deleting $TMPDIR on infom02-amd64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Sun Jun 1 16:47:30 -12 2025 I: pbuilder-time-stamp: 1748839650 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 [libsmithwaterman_0.0+git20160702.2610e25-12.dsc] I: copying [./libsmithwaterman_0.0+git20160702.2610e25.orig.tar.xz] I: copying [./libsmithwaterman_0.0+git20160702.2610e25-12.debian.tar.xz] I: Extracting source gpgv: Signature made Wed Oct 13 08:03:39 2021 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 ./libsmithwaterman_0.0+git20160702.2610e25-12.dsc: no acceptable signature found dpkg-source: info: extracting libsmithwaterman in libsmithwaterman-0.0+git20160702.2610e25 dpkg-source: info: unpacking libsmithwaterman_0.0+git20160702.2610e25.orig.tar.xz dpkg-source: info: unpacking libsmithwaterman_0.0+git20160702.2610e25-12.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying autoconf.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/2173866/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=12 ' DISTRIBUTION='trixie' HOME='/root' HOST_ARCH='amd64' IFS=' ' INVOCATION_ID='2ebfb50fb0f349108f507130703162d5' 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='2173866' 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.rkpMrQf6/pbuilderrc_y01b --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.rkpMrQf6/b1 --logfile b1/build.log libsmithwaterman_0.0+git20160702.2610e25-12.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' I: uname -a Linux infom02-amd64 6.6.13+bpo-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.6.13-1~bpo12+1 (2024-02-15) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 May 24 13:34 /bin -> usr/bin I: user script /srv/workspace/pbuilder/2173866/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), d-shlibs, libdisorder-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 ... 19901 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 d-shlibs; however: Package d-shlibs is not installed. pbuilder-satisfydepends-dummy depends on libdisorder-dev; however: Package libdisorder-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} d-shlibs{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} libdisorder-dev{a} libdisorder0{a} libelf1t64{a} libfile-stripnondeterminism-perl{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} 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 19.1 MB of archives. After unpacking 73.6 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian trixie/main amd64 sensible-utils all 0.0.22 [22.4 kB] Get: 2 http://deb.debian.org/debian trixie/main amd64 libmagic-mgc amd64 1:5.45-3 [314 kB] Get: 3 http://deb.debian.org/debian trixie/main amd64 libmagic1t64 amd64 1:5.45-3 [105 kB] Get: 4 http://deb.debian.org/debian trixie/main amd64 file amd64 1:5.45-3 [42.9 kB] Get: 5 http://deb.debian.org/debian trixie/main amd64 gettext-base amd64 0.21-14+b1 [161 kB] Get: 6 http://deb.debian.org/debian trixie/main amd64 libuchardet0 amd64 0.0.8-1+b1 [68.8 kB] Get: 7 http://deb.debian.org/debian trixie/main amd64 groff-base amd64 1.23.0-3+b1 [1180 kB] Get: 8 http://deb.debian.org/debian trixie/main amd64 bsdextrautils amd64 2.39.3-6 [89.4 kB] Get: 9 http://deb.debian.org/debian trixie/main amd64 libpipeline1 amd64 1.5.7-2 [38.0 kB] Get: 10 http://deb.debian.org/debian trixie/main amd64 man-db amd64 2.12.0-3 [1401 kB] Get: 11 http://deb.debian.org/debian trixie/main amd64 m4 amd64 1.4.19-4 [287 kB] Get: 12 http://deb.debian.org/debian trixie/main amd64 autoconf all 2.71-3 [332 kB] Get: 13 http://deb.debian.org/debian trixie/main amd64 autotools-dev all 20220109.1 [51.6 kB] Get: 14 http://deb.debian.org/debian trixie/main amd64 automake all 1:1.16.5-1.3 [823 kB] Get: 15 http://deb.debian.org/debian trixie/main amd64 autopoint all 0.21-14 [496 kB] Get: 16 http://deb.debian.org/debian trixie/main amd64 d-shlibs all 0.106 [10.9 kB] Get: 17 http://deb.debian.org/debian trixie/main amd64 libdebhelper-perl all 13.15.3 [88.0 kB] Get: 18 http://deb.debian.org/debian trixie/main amd64 libtool all 2.4.7-7 [517 kB] Get: 19 http://deb.debian.org/debian trixie/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 20 http://deb.debian.org/debian trixie/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 21 http://deb.debian.org/debian trixie/main amd64 libsub-override-perl all 0.10-1 [10.6 kB] Get: 22 http://deb.debian.org/debian trixie/main amd64 libfile-stripnondeterminism-perl all 1.13.1-1 [19.4 kB] Get: 23 http://deb.debian.org/debian trixie/main amd64 dh-strip-nondeterminism all 1.13.1-1 [8620 B] Get: 24 http://deb.debian.org/debian trixie/main amd64 libelf1t64 amd64 0.191-1+b1 [189 kB] Get: 25 http://deb.debian.org/debian trixie/main amd64 dwz amd64 0.15-1+b1 [110 kB] Get: 26 http://deb.debian.org/debian trixie/main amd64 libicu72 amd64 72.1-4+b1 [9395 kB] Get: 27 http://deb.debian.org/debian trixie/main amd64 libxml2 amd64 2.9.14+dfsg-1.3+b3 [692 kB] Get: 28 http://deb.debian.org/debian trixie/main amd64 gettext amd64 0.21-14+b1 [1301 kB] Get: 29 http://deb.debian.org/debian trixie/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 30 http://deb.debian.org/debian trixie/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 31 http://deb.debian.org/debian trixie/main amd64 debhelper all 13.15.3 [901 kB] Get: 32 http://deb.debian.org/debian trixie/main amd64 libdisorder0 amd64 0.0.2+git20130809.8062ee1-4+b1 [4884 B] Get: 33 http://deb.debian.org/debian trixie/main amd64 libdisorder-dev amd64 0.0.2+git20130809.8062ee1-4+b1 [4860 B] Fetched 19.1 MB in 1s (25.8 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 ... 19901 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_amd64.deb ... Unpacking libmagic-mgc (1:5.45-3) ... Selecting previously unselected package libmagic1t64:amd64. Preparing to unpack .../02-libmagic1t64_1%3a5.45-3_amd64.deb ... Unpacking libmagic1t64:amd64 (1:5.45-3) ... Selecting previously unselected package file. Preparing to unpack .../03-file_1%3a5.45-3_amd64.deb ... Unpacking file (1:5.45-3) ... Selecting previously unselected package gettext-base. Preparing to unpack .../04-gettext-base_0.21-14+b1_amd64.deb ... Unpacking gettext-base (0.21-14+b1) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../05-libuchardet0_0.0.8-1+b1_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.8-1+b1) ... Selecting previously unselected package groff-base. Preparing to unpack .../06-groff-base_1.23.0-3+b1_amd64.deb ... Unpacking groff-base (1.23.0-3+b1) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../07-bsdextrautils_2.39.3-6_amd64.deb ... Unpacking bsdextrautils (2.39.3-6) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../08-libpipeline1_1.5.7-2_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.7-2) ... Selecting previously unselected package man-db. Preparing to unpack .../09-man-db_2.12.0-3_amd64.deb ... Unpacking man-db (2.12.0-3) ... Selecting previously unselected package m4. Preparing to unpack .../10-m4_1.4.19-4_amd64.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 d-shlibs. Preparing to unpack .../15-d-shlibs_0.106_all.deb ... Unpacking d-shlibs (0.106) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../16-libdebhelper-perl_13.15.3_all.deb ... Unpacking libdebhelper-perl (13.15.3) ... Selecting previously unselected package libtool. Preparing to unpack .../17-libtool_2.4.7-7_all.deb ... Unpacking libtool (2.4.7-7) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../18-dh-autoreconf_20_all.deb ... Unpacking dh-autoreconf (20) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../19-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 .../20-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 .../21-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 .../22-dh-strip-nondeterminism_1.13.1-1_all.deb ... Unpacking dh-strip-nondeterminism (1.13.1-1) ... Selecting previously unselected package libelf1t64:amd64. Preparing to unpack .../23-libelf1t64_0.191-1+b1_amd64.deb ... Unpacking libelf1t64:amd64 (0.191-1+b1) ... Selecting previously unselected package dwz. Preparing to unpack .../24-dwz_0.15-1+b1_amd64.deb ... Unpacking dwz (0.15-1+b1) ... Selecting previously unselected package libicu72:amd64. Preparing to unpack .../25-libicu72_72.1-4+b1_amd64.deb ... Unpacking libicu72:amd64 (72.1-4+b1) ... Selecting previously unselected package libxml2:amd64. Preparing to unpack .../26-libxml2_2.9.14+dfsg-1.3+b3_amd64.deb ... Unpacking libxml2:amd64 (2.9.14+dfsg-1.3+b3) ... Selecting previously unselected package gettext. Preparing to unpack .../27-gettext_0.21-14+b1_amd64.deb ... Unpacking gettext (0.21-14+b1) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../28-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 .../29-po-debconf_1.0.21+nmu1_all.deb ... Unpacking po-debconf (1.0.21+nmu1) ... Selecting previously unselected package debhelper. Preparing to unpack .../30-debhelper_13.15.3_all.deb ... Unpacking debhelper (13.15.3) ... Selecting previously unselected package libdisorder0:amd64. Preparing to unpack .../31-libdisorder0_0.0.2+git20130809.8062ee1-4+b1_amd64.deb ... Unpacking libdisorder0:amd64 (0.0.2+git20130809.8062ee1-4+b1) ... Selecting previously unselected package libdisorder-dev:amd64. Preparing to unpack .../32-libdisorder-dev_0.0.2+git20130809.8062ee1-4+b1_amd64.deb ... Unpacking libdisorder-dev:amd64 (0.0.2+git20130809.8062ee1-4+b1) ... Setting up libpipeline1:amd64 (1.5.7-2) ... Setting up libdisorder0:amd64 (0.0.2+git20130809.8062ee1-4+b1) ... Setting up libicu72:amd64 (72.1-4+b1) ... Setting up bsdextrautils (2.39.3-6) ... 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:amd64 (1:5.45-3) ... Setting up gettext-base (0.21-14+b1) ... Setting up m4 (1.4.19-4) ... Setting up file (1:5.45-3) ... Setting up libelf1t64:amd64 (0.191-1+b1) ... Setting up autotools-dev (20220109.1) ... Setting up autopoint (0.21-14) ... Setting up d-shlibs (0.106) ... Setting up libdisorder-dev:amd64 (0.0.2+git20130809.8062ee1-4+b1) ... Setting up autoconf (2.71-3) ... Setting up dwz (0.15-1+b1) ... Setting up sensible-utils (0.0.22) ... Setting up libuchardet0:amd64 (0.0.8-1+b1) ... Setting up libsub-override-perl (0.10-1) ... Setting up libxml2:amd64 (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 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 (1.23.0-3+b1) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up man-db (2.12.0-3) ... Not building database; man-db/auto-update is not 'true'. Setting up debhelper (13.15.3) ... Processing triggers for libc-bin (2.37-18) ... 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/libsmithwaterman-0.0+git20160702.2610e25/ && 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 > ../libsmithwaterman_0.0+git20160702.2610e25-12_source.changes dpkg-buildpackage: info: source package libsmithwaterman dpkg-buildpackage: info: source version 0.0+git20160702.2610e25-12 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 --no-parallel dh_autoreconf_clean -O--no-parallel dh_clean -O--no-parallel debian/rules binary dh binary --no-parallel dh_update_autotools_config -O--no-parallel dh_autoreconf -O--no-parallel aclocal: warning: couldn't open directory 'config': No such file or directory libtoolize: putting auxiliary files in AC_CONFIG_AUX_DIR, 'config'. libtoolize: copying file 'config/ltmain.sh' libtoolize: putting macros in AC_CONFIG_MACRO_DIRS, 'config'. libtoolize: copying file 'config/libtool.m4' libtoolize: copying file 'config/ltoptions.m4' libtoolize: copying file 'config/ltsugar.m4' libtoolize: copying file 'config/ltversion.m4' libtoolize: copying file 'config/lt~obsolete.m4' libtoolize: Consider adding '-I config' to ACLOCAL_AMFLAGS in Makefile.am. configure.ac:30: warning: The macro `AC_PROG_LIBTOOL' is obsolete. configure.ac:30: You should run autoupdate. config/libtool.m4:100: AC_PROG_LIBTOOL is expanded from... configure.ac:30: the top level configure.ac:51: warning: The macro `AC_HEADER_STDC' is obsolete. configure.ac:51: You should run autoupdate. ./lib/autoconf/headers.m4:704: AC_HEADER_STDC is expanded from... configure.ac:51: the top level configure.ac:30: installing 'config/compile' configure.ac:30: installing 'config/config.guess' configure.ac:30: installing 'config/config.sub' configure.ac:18: installing 'config/install-sh' configure.ac:18: installing 'config/missing' Makefile.am: installing 'config/depcomp' dh_auto_configure -O--no-parallel ./configure --build=x86_64-linux-gnu --prefix=/usr --includedir=\${prefix}/include --mandir=\${prefix}/share/man --infodir=\${prefix}/share/info --sysconfdir=/etc --localstatedir=/var --disable-option-checking --disable-silent-rules --libdir=\${prefix}/lib/x86_64-linux-gnu --runstatedir=/run --disable-maintainer-mode --disable-dependency-tracking checking for a BSD-compatible install... /usr/bin/install -c checking whether build environment is sane... yes checking for a race-free mkdir -p... /usr/bin/mkdir -p checking for gawk... no checking for mawk... mawk checking whether make sets $(MAKE)... yes checking whether make supports nested variables... yes checking whether UID '1111' is supported by ustar format... yes checking whether GID '1111' is supported by ustar format... yes checking how to create a ustar tar archive... gnutar checking whether ln -s works... yes checking build system type... x86_64-pc-linux-gnu checking host system type... x86_64-pc-linux-gnu checking how to print strings... printf checking whether make supports the include directive... yes (GNU style) checking for gcc... gcc checking whether the C compiler works... yes checking for C compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether the compiler supports GNU C... yes checking whether gcc accepts -g... yes checking for gcc option to enable C11 features... none needed checking whether gcc understands -c and -o together... yes checking dependency style of gcc... none checking for a sed that does not truncate output... /usr/bin/sed checking for grep that handles long lines and -e... /usr/bin/grep checking for egrep... /usr/bin/grep -E checking for fgrep... /usr/bin/grep -F checking for ld used by gcc... /usr/bin/ld checking if the linker (/usr/bin/ld) is GNU ld... yes checking for BSD- or MS-compatible name lister (nm)... /usr/bin/nm -B checking the name lister (/usr/bin/nm -B) interface... BSD nm checking the maximum length of command line arguments... 1572864 checking how to convert x86_64-pc-linux-gnu file names to x86_64-pc-linux-gnu format... func_convert_file_noop checking how to convert x86_64-pc-linux-gnu file names to toolchain format... func_convert_file_noop checking for /usr/bin/ld option to reload object files... -r checking for file... file checking for objdump... objdump checking how to recognize dependent libraries... pass_all checking for dlltool... no checking how to associate runtime and link libraries... printf %s\n checking for ar... ar checking for archiver @FILE support... @ checking for strip... strip checking for ranlib... ranlib checking command to parse /usr/bin/nm -B output from gcc object... ok checking for sysroot... no checking for a working dd... /usr/bin/dd checking how to truncate binary pipes... /usr/bin/dd bs=4096 count=1 checking for mt... no checking if : is a manifest tool... no checking for stdio.h... yes checking for stdlib.h... yes checking for string.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for strings.h... yes checking for sys/stat.h... yes checking for sys/types.h... yes checking for unistd.h... yes checking for dlfcn.h... yes checking for objdir... .libs checking if gcc supports -fno-rtti -fno-exceptions... no checking for gcc option to produce PIC... -fPIC -DPIC checking if gcc PIC flag -fPIC -DPIC works... yes checking if gcc static flag -static works... yes checking if gcc supports -c -o file.o... yes checking if gcc supports -c -o file.o... (cached) yes checking whether the gcc linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes checking whether -lc should be explicitly linked in... no checking dynamic linker characteristics... GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking whether stripping libraries is possible... yes checking if libtool supports shared libraries... yes checking whether to build shared libraries... yes checking whether to build static libraries... yes checking for g++... g++ checking whether the compiler supports GNU C++... yes checking whether g++ accepts -g... yes checking for g++ option to enable C++11 features... none needed checking dependency style of g++... none checking how to run the C++ preprocessor... g++ -E checking for ld used by g++... /usr/bin/ld -m elf_x86_64 checking if the linker (/usr/bin/ld -m elf_x86_64) is GNU ld... yes checking whether the g++ linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes checking for g++ option to produce PIC... -fPIC -DPIC checking if g++ PIC flag -fPIC -DPIC works... yes checking if g++ static flag -static works... yes checking if g++ supports -c -o file.o... yes checking if g++ supports -c -o file.o... (cached) yes checking whether the g++ linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes checking dynamic linker characteristics... (cached) GNU/Linux ld.so checking how to hardcode library paths into programs... immediate ./configure: line 16912: AX_CXXFLAGS: command not found checking for egrep... (cached) /usr/bin/grep -E checking for stdlib.h... (cached) yes checking whether make sets $(MAKE)... (cached) yes checking that generated files are newer than configure... done configure: creating ./config.status config.status: creating Makefile config.status: creating libsmithwaterman.pc config.status: creating config.h config.status: executing depfiles commands config.status: executing libtool commands dh_auto_build -O--no-parallel make -j1 make[1]: Entering directory '/build/reproducible-path/libsmithwaterman-0.0+git20160702.2610e25' make all-am make[2]: Entering directory '/build/reproducible-path/libsmithwaterman-0.0+git20160702.2610e25' g++ -DHAVE_CONFIG_H -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/libsmithwaterman-0.0+git20160702.2610e25=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c -o smithwaterman.o smithwaterman.cpp /bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/libsmithwaterman-0.0+git20160702.2610e25=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c -o libsmithwaterman_la-BandedSmithWaterman.lo `test -f 'BandedSmithWaterman.cpp' || echo './'`BandedSmithWaterman.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/libsmithwaterman-0.0+git20160702.2610e25=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c BandedSmithWaterman.cpp -fPIC -DPIC -o .libs/libsmithwaterman_la-BandedSmithWaterman.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/libsmithwaterman-0.0+git20160702.2610e25=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c BandedSmithWaterman.cpp -o libsmithwaterman_la-BandedSmithWaterman.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/libsmithwaterman-0.0+git20160702.2610e25=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c -o libsmithwaterman_la-IndelAllele.lo `test -f 'IndelAllele.cpp' || echo './'`IndelAllele.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/libsmithwaterman-0.0+git20160702.2610e25=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c IndelAllele.cpp -fPIC -DPIC -o .libs/libsmithwaterman_la-IndelAllele.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/libsmithwaterman-0.0+git20160702.2610e25=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c IndelAllele.cpp -o libsmithwaterman_la-IndelAllele.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/libsmithwaterman-0.0+git20160702.2610e25=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c -o libsmithwaterman_la-LeftAlign.lo `test -f 'LeftAlign.cpp' || echo './'`LeftAlign.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/libsmithwaterman-0.0+git20160702.2610e25=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c LeftAlign.cpp -fPIC -DPIC -o .libs/libsmithwaterman_la-LeftAlign.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/libsmithwaterman-0.0+git20160702.2610e25=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c LeftAlign.cpp -o libsmithwaterman_la-LeftAlign.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/libsmithwaterman-0.0+git20160702.2610e25=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c -o libsmithwaterman_la-Repeats.lo `test -f 'Repeats.cpp' || echo './'`Repeats.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/libsmithwaterman-0.0+git20160702.2610e25=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c Repeats.cpp -fPIC -DPIC -o .libs/libsmithwaterman_la-Repeats.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/libsmithwaterman-0.0+git20160702.2610e25=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c Repeats.cpp -o libsmithwaterman_la-Repeats.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/libsmithwaterman-0.0+git20160702.2610e25=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c -o libsmithwaterman_la-SmithWatermanGotoh.lo `test -f 'SmithWatermanGotoh.cpp' || echo './'`SmithWatermanGotoh.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/libsmithwaterman-0.0+git20160702.2610e25=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c SmithWatermanGotoh.cpp -fPIC -DPIC -o .libs/libsmithwaterman_la-SmithWatermanGotoh.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/libsmithwaterman-0.0+git20160702.2610e25=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c SmithWatermanGotoh.cpp -o libsmithwaterman_la-SmithWatermanGotoh.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libsmithwaterman-0.0+git20160702.2610e25=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -version-info 0:0 -Wl,-z,relro -Wl,-z,now -o libsmithwaterman.la -rpath /usr/lib/x86_64-linux-gnu libsmithwaterman_la-BandedSmithWaterman.lo libsmithwaterman_la-IndelAllele.lo libsmithwaterman_la-LeftAlign.lo libsmithwaterman_la-Repeats.lo libsmithwaterman_la-SmithWatermanGotoh.lo libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-linux-gnu/13/../../../x86_64-linux-gnu/crti.o /usr/lib/gcc/x86_64-linux-gnu/13/crtbeginS.o .libs/libsmithwaterman_la-BandedSmithWaterman.o .libs/libsmithwaterman_la-IndelAllele.o .libs/libsmithwaterman_la-LeftAlign.o .libs/libsmithwaterman_la-Repeats.o .libs/libsmithwaterman_la-SmithWatermanGotoh.o -L/usr/lib/gcc/x86_64-linux-gnu/13 -L/usr/lib/gcc/x86_64-linux-gnu/13/../../../x86_64-linux-gnu -L/usr/lib/gcc/x86_64-linux-gnu/13/../../../../lib -L/lib/x86_64-linux-gnu -L/lib/../lib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/x86_64-linux-gnu/13/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-linux-gnu/13/crtendS.o /usr/lib/gcc/x86_64-linux-gnu/13/../../../x86_64-linux-gnu/crtn.o -g -O2 -fstack-protector-strong -Wl,-z -Wl,relro -Wl,-z -Wl,now -Wl,-soname -Wl,libsmithwaterman.so.0 -o .libs/libsmithwaterman.so.0.0.0 libtool: link: (cd ".libs" && rm -f "libsmithwaterman.so.0" && ln -s "libsmithwaterman.so.0.0.0" "libsmithwaterman.so.0") libtool: link: (cd ".libs" && rm -f "libsmithwaterman.so" && ln -s "libsmithwaterman.so.0.0.0" "libsmithwaterman.so") libtool: link: ar cr .libs/libsmithwaterman.a libsmithwaterman_la-BandedSmithWaterman.o libsmithwaterman_la-IndelAllele.o libsmithwaterman_la-LeftAlign.o libsmithwaterman_la-Repeats.o libsmithwaterman_la-SmithWatermanGotoh.o libtool: link: ranlib .libs/libsmithwaterman.a libtool: link: ( cd ".libs" && rm -f "libsmithwaterman.la" && ln -s "../libsmithwaterman.la" "libsmithwaterman.la" ) /bin/bash ./libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libsmithwaterman-0.0+git20160702.2610e25=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wl,-z,relro -Wl,-z,now -o smithwaterman smithwaterman.o libsmithwaterman.la -ldisorder libtool: link: g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libsmithwaterman-0.0+git20160702.2610e25=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wl,-z -Wl,relro -Wl,-z -Wl,now -o .libs/smithwaterman smithwaterman.o ./.libs/libsmithwaterman.so -ldisorder make[2]: Leaving directory '/build/reproducible-path/libsmithwaterman-0.0+git20160702.2610e25' make[1]: Leaving directory '/build/reproducible-path/libsmithwaterman-0.0+git20160702.2610e25' dh_auto_test -O--no-parallel make -j1 check "TESTSUITEFLAGS=-j1 --verbose" VERBOSE=1 make[1]: Entering directory '/build/reproducible-path/libsmithwaterman-0.0+git20160702.2610e25' make[1]: Leaving directory '/build/reproducible-path/libsmithwaterman-0.0+git20160702.2610e25' create-stamp debian/debhelper-build-stamp dh_testroot -O--no-parallel dh_prep -O--no-parallel dh_auto_install -O--no-parallel make -j1 install DESTDIR=/build/reproducible-path/libsmithwaterman-0.0\+git20160702.2610e25/debian/tmp AM_UPDATE_INFO_DIR=no make[1]: Entering directory '/build/reproducible-path/libsmithwaterman-0.0+git20160702.2610e25' make[2]: Entering directory '/build/reproducible-path/libsmithwaterman-0.0+git20160702.2610e25' /usr/bin/mkdir -p '/build/reproducible-path/libsmithwaterman-0.0+git20160702.2610e25/debian/tmp/usr/lib/x86_64-linux-gnu' /bin/bash ./libtool --mode=install /usr/bin/install -c libsmithwaterman.la '/build/reproducible-path/libsmithwaterman-0.0+git20160702.2610e25/debian/tmp/usr/lib/x86_64-linux-gnu' libtool: install: /usr/bin/install -c .libs/libsmithwaterman.so.0.0.0 /build/reproducible-path/libsmithwaterman-0.0+git20160702.2610e25/debian/tmp/usr/lib/x86_64-linux-gnu/libsmithwaterman.so.0.0.0 libtool: install: (cd /build/reproducible-path/libsmithwaterman-0.0+git20160702.2610e25/debian/tmp/usr/lib/x86_64-linux-gnu && { ln -s -f libsmithwaterman.so.0.0.0 libsmithwaterman.so.0 || { rm -f libsmithwaterman.so.0 && ln -s libsmithwaterman.so.0.0.0 libsmithwaterman.so.0; }; }) libtool: install: (cd /build/reproducible-path/libsmithwaterman-0.0+git20160702.2610e25/debian/tmp/usr/lib/x86_64-linux-gnu && { ln -s -f libsmithwaterman.so.0.0.0 libsmithwaterman.so || { rm -f libsmithwaterman.so && ln -s libsmithwaterman.so.0.0.0 libsmithwaterman.so; }; }) libtool: install: /usr/bin/install -c .libs/libsmithwaterman.lai /build/reproducible-path/libsmithwaterman-0.0+git20160702.2610e25/debian/tmp/usr/lib/x86_64-linux-gnu/libsmithwaterman.la libtool: install: /usr/bin/install -c .libs/libsmithwaterman.a /build/reproducible-path/libsmithwaterman-0.0+git20160702.2610e25/debian/tmp/usr/lib/x86_64-linux-gnu/libsmithwaterman.a libtool: install: chmod 644 /build/reproducible-path/libsmithwaterman-0.0+git20160702.2610e25/debian/tmp/usr/lib/x86_64-linux-gnu/libsmithwaterman.a libtool: install: ranlib /build/reproducible-path/libsmithwaterman-0.0+git20160702.2610e25/debian/tmp/usr/lib/x86_64-linux-gnu/libsmithwaterman.a libtool: warning: remember to run 'libtool --finish /usr/lib/x86_64-linux-gnu' /usr/bin/mkdir -p '/build/reproducible-path/libsmithwaterman-0.0+git20160702.2610e25/debian/tmp/usr/bin' /bin/bash ./libtool --mode=install /usr/bin/install -c smithwaterman '/build/reproducible-path/libsmithwaterman-0.0+git20160702.2610e25/debian/tmp/usr/bin' libtool: warning: 'libsmithwaterman.la' has not been installed in '/usr/lib/x86_64-linux-gnu' libtool: install: /usr/bin/install -c .libs/smithwaterman /build/reproducible-path/libsmithwaterman-0.0+git20160702.2610e25/debian/tmp/usr/bin/smithwaterman /usr/bin/mkdir -p '/build/reproducible-path/libsmithwaterman-0.0+git20160702.2610e25/debian/tmp/usr/include/smithwaterman' /usr/bin/install -c -m 644 BandedSmithWaterman.h IndelAllele.h LeftAlign.h Mosaik.h Repeats.h SmithWatermanGotoh.h convert.h '/build/reproducible-path/libsmithwaterman-0.0+git20160702.2610e25/debian/tmp/usr/include/smithwaterman' /usr/bin/mkdir -p '/build/reproducible-path/libsmithwaterman-0.0+git20160702.2610e25/debian/tmp/usr/lib/x86_64-linux-gnu/pkgconfig' /usr/bin/install -c -m 644 libsmithwaterman.pc '/build/reproducible-path/libsmithwaterman-0.0+git20160702.2610e25/debian/tmp/usr/lib/x86_64-linux-gnu/pkgconfig' make[2]: Leaving directory '/build/reproducible-path/libsmithwaterman-0.0+git20160702.2610e25' make[1]: Leaving directory '/build/reproducible-path/libsmithwaterman-0.0+git20160702.2610e25' debian/rules override_dh_install make[1]: Entering directory '/build/reproducible-path/libsmithwaterman-0.0+git20160702.2610e25' dh_install d-shlibmove --commit \ --multiarch \ --devunversioned \ --exclude-la \ --movedev debian/tmp/usr/include/* usr/include \ --movedev "debian/tmp/usr/lib/*/pkgconfig/*.pc" usr/lib/x86_64-linux-gnu/pkgconfig \ debian/tmp/usr/lib/*/*.so Library package automatic movement utility set -e install -d -m 755 debian/libsmithwaterman-dev/usr/lib/x86_64-linux-gnu install -d -m 755 debian/libsmithwaterman0/usr/lib/x86_64-linux-gnu mv debian/tmp/usr/lib/x86_64-linux-gnu/libsmithwaterman.a debian/libsmithwaterman-dev/usr/lib/x86_64-linux-gnu mv debian/tmp/usr/lib/x86_64-linux-gnu/libsmithwaterman.so debian/libsmithwaterman-dev/usr/lib/x86_64-linux-gnu mv /build/reproducible-path/libsmithwaterman-0.0+git20160702.2610e25/debian/tmp/usr/lib/x86_64-linux-gnu/libsmithwaterman.so.0 debian/libsmithwaterman0/usr/lib/x86_64-linux-gnu mv /build/reproducible-path/libsmithwaterman-0.0+git20160702.2610e25/debian/tmp/usr/lib/x86_64-linux-gnu/libsmithwaterman.so.0.0.0 debian/libsmithwaterman0/usr/lib/x86_64-linux-gnu PKGDEV=libsmithwaterman-dev PKGSHL=libsmithwaterman0 install -d -m 755 debian/libsmithwaterman-dev/usr/include mv debian/tmp/usr/include/smithwaterman debian/libsmithwaterman-dev/usr/include install -d -m 755 debian/libsmithwaterman-dev/usr/lib/x86_64-linux-gnu/pkgconfig mv debian/tmp/usr/lib/*/pkgconfig/*.pc debian/libsmithwaterman-dev/usr/lib/x86_64-linux-gnu/pkgconfig find debian -name "lib*.la" -delete make[1]: Leaving directory '/build/reproducible-path/libsmithwaterman-0.0+git20160702.2610e25' dh_installdocs -O--no-parallel dh_installchangelogs -O--no-parallel dh_installexamples -O--no-parallel dh_installman -O--no-parallel dh_installsystemduser -O--no-parallel dh_perl -O--no-parallel dh_link -O--no-parallel dh_strip_nondeterminism -O--no-parallel dh_compress -O--no-parallel dh_fixperms -O--no-parallel dh_missing -O--no-parallel dh_dwz -a -O--no-parallel dh_strip -a -O--no-parallel dh_makeshlibs -a -O--no-parallel dh_shlibdeps -a -O--no-parallel dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/smithwaterman/usr/bin/smithwaterman was not linked against libdisorder.so.0 (it uses none of the library's symbols) dpkg-shlibdeps: warning: symbol shannon_H used by debian/libsmithwaterman0/usr/lib/x86_64-linux-gnu/libsmithwaterman.so.0.0.0 found in none of the libraries dh_installdeb -O--no-parallel dh_gencontrol -O--no-parallel dpkg-gencontrol: warning: Depends field of package libsmithwaterman-dev: substitution variable ${shlibs:Depends} used, but is not defined dh_md5sums -O--no-parallel dh_builddeb -O--no-parallel dpkg-deb: building package 'libsmithwaterman0-dbgsym' in '../libsmithwaterman0-dbgsym_0.0+git20160702.2610e25-12_amd64.deb'. dpkg-deb: building package 'libsmithwaterman-dev' in '../libsmithwaterman-dev_0.0+git20160702.2610e25-12_amd64.deb'. dpkg-deb: building package 'libsmithwaterman0' in '../libsmithwaterman0_0.0+git20160702.2610e25-12_amd64.deb'. dpkg-deb: building package 'smithwaterman-dbgsym' in '../smithwaterman-dbgsym_0.0+git20160702.2610e25-12_amd64.deb'. dpkg-deb: building package 'smithwaterman' in '../smithwaterman_0.0+git20160702.2610e25-12_amd64.deb'. dpkg-genbuildinfo --build=binary -O../libsmithwaterman_0.0+git20160702.2610e25-12_amd64.buildinfo dpkg-genchanges --build=binary -O../libsmithwaterman_0.0+git20160702.2610e25-12_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/2173866 and its subdirectories I: Current time: Sun Jun 1 16:48:48 -12 2025 I: pbuilder-time-stamp: 1748839728 Mon Apr 29 22:25:49 UTC 2024 I: 1st build successful. Starting 2nd build on remote node infom01-amd64.debian.net. Mon Apr 29 22:25:49 UTC 2024 I: Preparing to do remote build '2' on infom01-amd64.debian.net. Mon Apr 29 22:26:50 UTC 2024 I: Deleting $TMPDIR on infom01-amd64.debian.net. Mon Apr 29 22:26:51 UTC 2024 I: libsmithwaterman_0.0+git20160702.2610e25-12_amd64.changes: Format: 1.8 Date: Wed, 13 Oct 2021 10:01:23 +0200 Source: libsmithwaterman Binary: libsmithwaterman-dev libsmithwaterman0 libsmithwaterman0-dbgsym smithwaterman smithwaterman-dbgsym Architecture: amd64 Version: 0.0+git20160702.2610e25-12 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Andreas Tille Description: libsmithwaterman-dev - determine similar regions between two strings or genomic sequence libsmithwaterman0 - determine similar regions between two strings or genomic sequence smithwaterman - determine similar regions between two strings or genomic sequence Closes: 984207 Changes: libsmithwaterman (0.0+git20160702.2610e25-12) unstable; urgency=medium . * Packaging update * Standards-Version: 4.6.0 (routine-update) * Apply multi-arch hints. + libsmithwaterman-dev, libsmithwaterman0: Add Multi-Arch: same. * Drop symbols file to reduce maintenance burden Closes: #984207 Checksums-Sha1: 9cb95e7fd0a732288e507574536ffc3588ff072c 40764 libsmithwaterman-dev_0.0+git20160702.2610e25-12_amd64.deb ce3c32697c3b3be6b2fc7c2ec2dfa4c0b7a2a868 365120 libsmithwaterman0-dbgsym_0.0+git20160702.2610e25-12_amd64.deb 95e850e1933f177a5ffa8f45357a0a3f66de5b95 36508 libsmithwaterman0_0.0+git20160702.2610e25-12_amd64.deb 46cfbf5d50db36166263779358a089ae5f3ea7e4 7013 libsmithwaterman_0.0+git20160702.2610e25-12_amd64.buildinfo 8718135b83fb0b272a36474c8e126635aa4daf7c 60848 smithwaterman-dbgsym_0.0+git20160702.2610e25-12_amd64.deb cd1b9a7a1967a4b4450b7ac04df69ee74f9e893e 12564 smithwaterman_0.0+git20160702.2610e25-12_amd64.deb Checksums-Sha256: 5413b374f47ba34cbafe3ff969364ea92c9d677a57bc4380f8226e9c7b080d11 40764 libsmithwaterman-dev_0.0+git20160702.2610e25-12_amd64.deb bb37f287dbdac5ce7606b71d2ca529bf814b6c6a0765eed3242b1be3187fc3a4 365120 libsmithwaterman0-dbgsym_0.0+git20160702.2610e25-12_amd64.deb e23f8d9f3f090524aba798a58f5a96ba0f013c90b99e338b3d8ae312ee602961 36508 libsmithwaterman0_0.0+git20160702.2610e25-12_amd64.deb 03d434e127c8155d7bc54cf529de9895ec6445f7aef1e07dc2beb0a5ae0d2c5d 7013 libsmithwaterman_0.0+git20160702.2610e25-12_amd64.buildinfo 6ab3f7078f42a0714727597e8cecc8c7677c9378dd230d4ab2ae479724bf7b43 60848 smithwaterman-dbgsym_0.0+git20160702.2610e25-12_amd64.deb caa37775600f3033126f407141abebbe5537ca7c42dda06497f0e042869d1dd8 12564 smithwaterman_0.0+git20160702.2610e25-12_amd64.deb Files: 4c2ca1a1e10ef5a7ee2d784536e9235a 40764 libdevel optional libsmithwaterman-dev_0.0+git20160702.2610e25-12_amd64.deb 7a9f9bb181a53fd320be90d374b02b90 365120 debug optional libsmithwaterman0-dbgsym_0.0+git20160702.2610e25-12_amd64.deb 902640c5004cf3653145df1503618475 36508 libs optional libsmithwaterman0_0.0+git20160702.2610e25-12_amd64.deb 2bc65f0cb68e2aba583b349ebd133a9c 7013 science optional libsmithwaterman_0.0+git20160702.2610e25-12_amd64.buildinfo cb67ef4676b05c3d32d47e2e9c6f566a 60848 debug optional smithwaterman-dbgsym_0.0+git20160702.2610e25-12_amd64.deb d2a986b27fb9f5521dd4873a0a11c4a3 12564 science optional smithwaterman_0.0+git20160702.2610e25-12_amd64.deb Mon Apr 29 22:26:52 UTC 2024 I: diffoscope 265 will be used to compare the two builds: Running as unit: rb-diffoscope-amd64_38-7352.service # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.rkpMrQf6/libsmithwaterman_0.0+git20160702.2610e25-12.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.rkpMrQf6/libsmithwaterman_0.0+git20160702.2610e25-12.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.rkpMrQf6/libsmithwaterman_0.0+git20160702.2610e25-12.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.rkpMrQf6/b1/libsmithwaterman_0.0+git20160702.2610e25-12_amd64.changes /srv/reproducible-results/rbuild-debian/r-b-build.rkpMrQf6/b2/libsmithwaterman_0.0+git20160702.2610e25-12_amd64.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: 0.339s) 0.339s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.024s) 0.024s 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: 656ms CPU time consumed: 655ms Mon Apr 29 22:26:53 UTC 2024 I: diffoscope 265 found no differences in the changes files, and a .buildinfo file also exists. Mon Apr 29 22:26:53 UTC 2024 I: libsmithwaterman from trixie built successfully and reproducibly on amd64. Mon Apr 29 22:26:54 UTC 2024 I: Submitting .buildinfo files to external archives: Mon Apr 29 22:26:54 UTC 2024 I: Submitting 8.0K b1/libsmithwaterman_0.0+git20160702.2610e25-12_amd64.buildinfo.asc Mon Apr 29 22:26:56 UTC 2024 I: Submitting 8.0K b2/libsmithwaterman_0.0+git20160702.2610e25-12_amd64.buildinfo.asc Mon Apr 29 22:26:57 UTC 2024 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Mon Apr 29 22:26:57 UTC 2024 I: Done submitting .buildinfo files. Mon Apr 29 22:26:57 UTC 2024 I: Removing signed libsmithwaterman_0.0+git20160702.2610e25-12_amd64.buildinfo.asc files: removed './b1/libsmithwaterman_0.0+git20160702.2610e25-12_amd64.buildinfo.asc' removed './b2/libsmithwaterman_0.0+git20160702.2610e25-12_amd64.buildinfo.asc'