Tue Oct 28 16:57:02 UTC 2025 I: starting to build libedlib/forky/amd64 on jenkins on '2025-10-28 16:56' Tue Oct 28 16:57:02 UTC 2025 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/amd64_33/88004/console.log Tue Oct 28 16:57:02 UTC 2025 I: Downloading source for forky/libedlib=1.2.7-7 --2025-10-28 16:57:02-- http://deb.debian.org/debian/pool/main/libe/libedlib/libedlib_1.2.7-7.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2389 (2.3K) [text/prs.lines.tag] Saving to: ‘libedlib_1.2.7-7.dsc’ 0K .. 100% 281M=0s 2025-10-28 16:57:02 (281 MB/s) - ‘libedlib_1.2.7-7.dsc’ saved [2389/2389] Tue Oct 28 16:57:02 UTC 2025 I: libedlib_1.2.7-7.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: libedlib Binary: libedlib1, libedlib-dev, edlib-aligner, python3-edlib Architecture: any Version: 1.2.7-7 Maintainer: Debian Med Packaging Team Uploaders: Andreas Tille , Étienne Mollier Homepage: https://github.com/Martinsos/edlib Standards-Version: 4.7.2 Vcs-Browser: https://salsa.debian.org/med-team/libedlib Vcs-Git: https://salsa.debian.org/med-team/libedlib.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 13), cmake, dh-sequence-python3, d-shlibs, rename, cython3, python3-all-dev, python3-setuptools Package-List: edlib-aligner deb science optional arch=any libedlib-dev deb libdevel optional arch=any libedlib1 deb libs optional arch=any python3-edlib deb python optional arch=any Checksums-Sha1: 9e3702547e7c789015df742f84b987bec43811c5 4318998 libedlib_1.2.7.orig.tar.gz 8a2734c5c4970b635aef061db79f7fd22d41498f 7828 libedlib_1.2.7-7.debian.tar.xz Checksums-Sha256: 8767bc1b04a1a67282d57662e5702c4908996e96b1753b5520921ff189974621 4318998 libedlib_1.2.7.orig.tar.gz 94743526822ddc275a1110e4fc6b193bb6bc70c077145ba40b4728f3889dcc44 7828 libedlib_1.2.7-7.debian.tar.xz Files: 77917d44bfd08216f2dd4480578688c2 4318998 libedlib_1.2.7.orig.tar.gz 702752a6feaf11362b51f673d10321a2 7828 libedlib_1.2.7-7.debian.tar.xz Dgit: 8d3f2c10c10cd3f6b01200682e2b3f4e031726e1 debian archive/debian/1.2.7-7 https://git.dgit.debian.org/libedlib -----BEGIN PGP SIGNATURE----- iQJIBAEBCgAyFiEEj5GyJ8fW8rGUjII2eTz2fo8NEdoFAmjdcT8UHGVtb2xsaWVy QGRlYmlhbi5vcmcACgkQeTz2fo8NEdqcZBAAq5auLOTKtOeklEqDg0Hw3+NV8MB8 YebLcqOWz3BHHuGq16KnRiH/l71VUoq9HOdgRLwlFqc3g1I3sHwSEJs1sHZbzvcj vFORRWYj5fUEtQQgg+0SHupLgn83jr+dxncPrXXadTxMYKn1Jh3zjHuJmJzuVEUi S66gclz46oH73cZC+FAybvEOHDXKOnBTp/9XY/dWMQ81HoldAzbmIB2kS3Dd5UGS VA5EQ8i1WWbgGiVE5yLhkMo7cE5x3DIifXDl17W8K0dBEZ+oj2PpFeWMVqDdyWrP iTJ/2wWvOuy3NsrSrYaNDPE6FG5WZSP/DfbeMnv8i7xH+FfDCFwuhlRWUTK2qAzv yeMzvMAZIf8+C8CA/qLyhQ0nUP89IFvyV+/Fowh0yNz/Do1Q76xphfVMr7Q7UfT8 PTtgHg0BQ0JcAt2N5RmvcBenQhlF6+gGncEC5qnL78Fyc8itg7xdJHC/g/40P1v+ 1MpPuTjD1iqxOKQwpgRJTitLIbMa/2hA95tvIfmrT0a7MFQvU1EX6V4IfLFDc954 WE6nniZWFdgtS5srz4+GDWQotZU7G7WVzPglr0m6lHV1BmShTF9cNg/sNlLMjli1 YCLeTLz++60LSY6mC21wnEtDsXtHQ36sZqMAWPTABb+J+Ifmy6sWYPPkQ0YuW+pm kN52+UpdGjGACJg= =f0oW -----END PGP SIGNATURE----- Tue Oct 28 16:57:02 UTC 2025 I: Checking whether the package is not for us Tue Oct 28 16:57:02 UTC 2025 I: Starting 1st build on remote node infom01-amd64.debian.net. Tue Oct 28 16:57:02 UTC 2025 I: Preparing to do remote build '1' on infom01-amd64.debian.net. Tue Oct 28 16:58:32 UTC 2025 I: Deleting $TMPDIR on infom01-amd64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Tue Oct 28 04:57:03 -12 2025 I: pbuilder-time-stamp: 1761670623 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/forky-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [libedlib_1.2.7-7.dsc] I: copying [./libedlib_1.2.7.orig.tar.gz] I: copying [./libedlib_1.2.7-7.debian.tar.xz] I: Extracting source dpkg-source: warning: cannot verify inline signature for ./libedlib_1.2.7-7.dsc: no acceptable signature found dpkg-source: info: extracting libedlib in libedlib-1.2.7 dpkg-source: info: unpacking libedlib_1.2.7.orig.tar.gz dpkg-source: info: unpacking libedlib_1.2.7-7.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying cython3.patch dpkg-source: info: applying enable_shared_and_static.patch dpkg-source: info: applying really_exclude_readme.rst.patch dpkg-source: info: applying fix-package-version.patch dpkg-source: info: applying cmake-4.patch I: using fakeroot in build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/3623522/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='forky' HOME='/root' HOST_ARCH='amd64' IFS=' ' INVOCATION_ID='1057b3e5bbad4bf086a0a33cf7c86ddb' 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='3623522' 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.yF48jMoY/pbuilderrc_uO5U --distribution forky --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/forky-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.yF48jMoY/b1 --logfile b1/build.log libedlib_1.2.7-7.dsc' SUDO_GID='109' SUDO_HOME='/var/lib/jenkins' SUDO_UID='104' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' I: uname -a Linux infom01-amd64 6.12.48+deb13-cloud-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.12.48-1 (2025-09-20) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Aug 10 12:30 /bin -> usr/bin I: user script /srv/workspace/pbuilder/3623522/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), cmake, dh-sequence-python3, d-shlibs, rename, cython3, python3-all-dev, python3-setuptools dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19902 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 cmake; however: Package cmake is not installed. pbuilder-satisfydepends-dummy depends on dh-sequence-python3; however: Package dh-sequence-python3 is not installed. pbuilder-satisfydepends-dummy depends on d-shlibs; however: Package d-shlibs is not installed. pbuilder-satisfydepends-dummy depends on rename; however: Package rename is not installed. pbuilder-satisfydepends-dummy depends on cython3; however: Package cython3 is not installed. pbuilder-satisfydepends-dummy depends on python3-all-dev; however: Package python3-all-dev is not installed. pbuilder-satisfydepends-dummy depends on python3-setuptools; however: Package python3-setuptools 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} cmake{a} cmake-data{a} cython3{a} d-shlibs{a} debhelper{a} dh-autoreconf{a} dh-python{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libarchive13t64{a} libbrotli1{a} libcom-err2{a} libcurl4t64{a} libdebhelper-perl{a} libelf1t64{a} libexpat1{a} libexpat1-dev{a} libffi8{a} libfile-stripnondeterminism-perl{a} libgnutls30t64{a} libgssapi-krb5-2{a} libidn2-0{a} libjs-sphinxdoc{a} libjsoncpp26{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} libldap2{a} libmagic-mgc{a} libmagic1t64{a} libnghttp2-14{a} libnghttp3-9{a} libngtcp2-16{a} libngtcp2-crypto-ossl0{a} libp11-kit0{a} libpipeline1{a} libproc2-0{a} libpsl5t64{a} libpython3-all-dev{a} libpython3-dev{a} libpython3-stdlib{a} libpython3.13{a} libpython3.13-dev{a} libpython3.13-minimal{a} libpython3.13-stdlib{a} libreadline8t64{a} librhash1{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libssh2-1t64{a} libtasn1-6{a} libtool{a} libuchardet0{a} libunistring5{a} libuv1t64{a} libxml2-16{a} m4{a} man-db{a} media-types{a} netbase{a} po-debconf{a} procps{a} python3{a} python3-all{a} python3-all-dev{a} python3-autocommand{a} python3-dev{a} python3-inflect{a} python3-jaraco.context{a} python3-jaraco.functools{a} python3-jaraco.text{a} python3-minimal{a} python3-more-itertools{a} python3-pkg-resources{a} python3-setuptools{a} python3-typeguard{a} python3-typing-extensions{a} python3-zipp{a} python3.13{a} python3.13-dev{a} python3.13-minimal{a} readline-common{a} rename{a} sensible-utils{a} tzdata{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: ca-certificates curl krb5-locales libarchive-cpio-perl libldap-common libltdl-dev libmail-sendmail-perl libsasl2-modules linux-sysctl-defaults lynx psmisc publicsuffix wget 0 packages upgraded, 99 newly installed, 0 to remove and 0 not upgraded. Need to get 51.4 MB of archives. After unpacking 196 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian forky/main amd64 libexpat1 amd64 2.7.3-1 [112 kB] Get: 2 http://deb.debian.org/debian forky/main amd64 libpython3.13-minimal amd64 3.13.9-1 [865 kB] Get: 3 http://deb.debian.org/debian forky/main amd64 python3.13-minimal amd64 3.13.9-1 [2257 kB] Get: 4 http://deb.debian.org/debian forky/main amd64 python3-minimal amd64 3.13.7-1 [27.2 kB] Get: 5 http://deb.debian.org/debian forky/main amd64 media-types all 14.0.0 [30.8 kB] Get: 6 http://deb.debian.org/debian forky/main amd64 netbase all 6.5 [12.4 kB] Get: 7 http://deb.debian.org/debian forky/main amd64 tzdata all 2025b-5 [260 kB] Get: 8 http://deb.debian.org/debian forky/main amd64 libffi8 amd64 3.5.2-2 [25.5 kB] Get: 9 http://deb.debian.org/debian forky/main amd64 readline-common all 8.3-3 [74.8 kB] Get: 10 http://deb.debian.org/debian forky/main amd64 libreadline8t64 amd64 8.3-3 [191 kB] Get: 11 http://deb.debian.org/debian forky/main amd64 libpython3.13-stdlib amd64 3.13.9-1 [1965 kB] Get: 12 http://deb.debian.org/debian forky/main amd64 python3.13 amd64 3.13.9-1 [764 kB] Get: 13 http://deb.debian.org/debian forky/main amd64 libpython3-stdlib amd64 3.13.7-1 [10.2 kB] Get: 14 http://deb.debian.org/debian forky/main amd64 python3 amd64 3.13.7-1 [28.3 kB] Get: 15 http://deb.debian.org/debian forky/main amd64 libproc2-0 amd64 2:4.0.4-9 [65.6 kB] Get: 16 http://deb.debian.org/debian forky/main amd64 procps amd64 2:4.0.4-9 [882 kB] Get: 17 http://deb.debian.org/debian forky/main amd64 sensible-utils all 0.0.26 [27.0 kB] Get: 18 http://deb.debian.org/debian forky/main amd64 libmagic-mgc amd64 1:5.46-5 [338 kB] Get: 19 http://deb.debian.org/debian forky/main amd64 libmagic1t64 amd64 1:5.46-5 [109 kB] Get: 20 http://deb.debian.org/debian forky/main amd64 file amd64 1:5.46-5 [43.6 kB] Get: 21 http://deb.debian.org/debian forky/main amd64 gettext-base amd64 0.23.1-2+b1 [244 kB] Get: 22 http://deb.debian.org/debian forky/main amd64 libuchardet0 amd64 0.0.8-2 [68.5 kB] Get: 23 http://deb.debian.org/debian forky/main amd64 groff-base amd64 1.23.0-9 [1187 kB] Get: 24 http://deb.debian.org/debian forky/main amd64 bsdextrautils amd64 2.41.2-1 [95.2 kB] Get: 25 http://deb.debian.org/debian forky/main amd64 libpipeline1 amd64 1.5.8-1 [42.0 kB] Get: 26 http://deb.debian.org/debian forky/main amd64 man-db amd64 2.13.1-1 [1469 kB] Get: 27 http://deb.debian.org/debian forky/main amd64 m4 amd64 1.4.20-2 [325 kB] Get: 28 http://deb.debian.org/debian forky/main amd64 autoconf all 2.72-3.1 [494 kB] Get: 29 http://deb.debian.org/debian forky/main amd64 autotools-dev all 20240727.1 [60.2 kB] Get: 30 http://deb.debian.org/debian forky/main amd64 automake all 1:1.18.1-2 [877 kB] Get: 31 http://deb.debian.org/debian forky/main amd64 autopoint all 0.23.1-2 [770 kB] Get: 32 http://deb.debian.org/debian forky/main amd64 cmake-data all 4.1.1+really3.31.6-2 [2268 kB] Get: 33 http://deb.debian.org/debian forky/main amd64 libxml2-16 amd64 2.14.6+dfsg-0.1 [651 kB] Get: 34 http://deb.debian.org/debian forky/main amd64 libarchive13t64 amd64 3.7.4-4+b1 [349 kB] Get: 35 http://deb.debian.org/debian forky/main amd64 libnghttp3-9 amd64 1.12.0-1 [68.4 kB] Get: 36 http://deb.debian.org/debian forky/main amd64 libngtcp2-16 amd64 1.16.0-1 [136 kB] Get: 37 http://deb.debian.org/debian forky/main amd64 libbrotli1 amd64 1.1.0-2+b7 [307 kB] Get: 38 http://deb.debian.org/debian forky/main amd64 libkrb5support0 amd64 1.21.3-5 [33.0 kB] Get: 39 http://deb.debian.org/debian forky/main amd64 libcom-err2 amd64 1.47.2-3+b3 [25.0 kB] Get: 40 http://deb.debian.org/debian forky/main amd64 libk5crypto3 amd64 1.21.3-5 [81.5 kB] Get: 41 http://deb.debian.org/debian forky/main amd64 libkeyutils1 amd64 1.6.3-6 [9456 B] Get: 42 http://deb.debian.org/debian forky/main amd64 libkrb5-3 amd64 1.21.3-5 [326 kB] Get: 43 http://deb.debian.org/debian forky/main amd64 libgssapi-krb5-2 amd64 1.21.3-5 [138 kB] Get: 44 http://deb.debian.org/debian forky/main amd64 libunistring5 amd64 1.3-2 [477 kB] Get: 45 http://deb.debian.org/debian forky/main amd64 libidn2-0 amd64 2.3.8-4 [110 kB] Get: 46 http://deb.debian.org/debian forky/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg1-10 [19.8 kB] Get: 47 http://deb.debian.org/debian forky/main amd64 libsasl2-2 amd64 2.1.28+dfsg1-10 [57.8 kB] Get: 48 http://deb.debian.org/debian forky/main amd64 libldap2 amd64 2.6.10+dfsg-1 [194 kB] Get: 49 http://deb.debian.org/debian forky/main amd64 libnghttp2-14 amd64 1.64.0-1.1+b1 [76.2 kB] Get: 50 http://deb.debian.org/debian forky/main amd64 libngtcp2-crypto-ossl0 amd64 1.16.0-1 [27.5 kB] Get: 51 http://deb.debian.org/debian forky/main amd64 libpsl5t64 amd64 0.21.2-1.1+b1 [57.2 kB] Get: 52 http://deb.debian.org/debian forky/main amd64 libp11-kit0 amd64 0.25.9-2 [443 kB] Get: 53 http://deb.debian.org/debian forky/main amd64 libtasn1-6 amd64 4.20.0-2 [49.9 kB] Get: 54 http://deb.debian.org/debian forky/main amd64 libgnutls30t64 amd64 3.8.10-3 [1493 kB] Get: 55 http://deb.debian.org/debian forky/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-3 [58.3 kB] Get: 56 http://deb.debian.org/debian forky/main amd64 libssh2-1t64 amd64 1.11.1-1 [245 kB] Get: 57 http://deb.debian.org/debian forky/main amd64 libcurl4t64 amd64 8.17.0~rc2-1 [408 kB] Get: 58 http://deb.debian.org/debian forky/main amd64 libjsoncpp26 amd64 1.9.6-4 [89.4 kB] Get: 59 http://deb.debian.org/debian forky/main amd64 librhash1 amd64 1.4.6-1 [137 kB] Get: 60 http://deb.debian.org/debian forky/main amd64 libuv1t64 amd64 1.51.0-2 [155 kB] Get: 61 http://deb.debian.org/debian forky/main amd64 cmake amd64 4.1.1+really3.31.6-2 [12.2 MB] Get: 62 http://deb.debian.org/debian forky/main amd64 cython3 amd64 3.0.11+dfsg-2+b1 [2504 kB] Get: 63 http://deb.debian.org/debian forky/main amd64 d-shlibs all 0.109 [11.1 kB] Get: 64 http://deb.debian.org/debian forky/main amd64 libdebhelper-perl all 13.28 [92.4 kB] Get: 65 http://deb.debian.org/debian forky/main amd64 libtool all 2.5.4-7 [540 kB] Get: 66 http://deb.debian.org/debian forky/main amd64 dh-autoreconf all 21 [12.2 kB] Get: 67 http://deb.debian.org/debian forky/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 68 http://deb.debian.org/debian forky/main amd64 libfile-stripnondeterminism-perl all 1.15.0-1 [19.9 kB] Get: 69 http://deb.debian.org/debian forky/main amd64 dh-strip-nondeterminism all 1.15.0-1 [8812 B] Get: 70 http://deb.debian.org/debian forky/main amd64 libelf1t64 amd64 0.193-3 [192 kB] Get: 71 http://deb.debian.org/debian forky/main amd64 dwz amd64 0.16-2 [108 kB] Get: 72 http://deb.debian.org/debian forky/main amd64 gettext amd64 0.23.1-2+b1 [1680 kB] Get: 73 http://deb.debian.org/debian forky/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 74 http://deb.debian.org/debian forky/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 75 http://deb.debian.org/debian forky/main amd64 debhelper all 13.28 [941 kB] Get: 76 http://deb.debian.org/debian forky/main amd64 dh-python all 6.20250414 [116 kB] Get: 77 http://deb.debian.org/debian forky/main amd64 libexpat1-dev amd64 2.7.3-1 [165 kB] Get: 78 http://deb.debian.org/debian forky/main amd64 libjs-sphinxdoc all 8.2.3-8 [27.6 kB] Get: 79 http://deb.debian.org/debian forky/main amd64 libpython3.13 amd64 3.13.9-1 [2184 kB] Get: 80 http://deb.debian.org/debian forky/main amd64 zlib1g-dev amd64 1:1.3.dfsg+really1.3.1-1+b1 [920 kB] Get: 81 http://deb.debian.org/debian forky/main amd64 libpython3.13-dev amd64 3.13.9-1 [5311 kB] Get: 82 http://deb.debian.org/debian forky/main amd64 libpython3-dev amd64 3.13.7-1 [10.5 kB] Get: 83 http://deb.debian.org/debian forky/main amd64 libpython3-all-dev amd64 3.13.7-1 [1068 B] Get: 84 http://deb.debian.org/debian forky/main amd64 python3-all amd64 3.13.7-1 [1048 B] Get: 85 http://deb.debian.org/debian forky/main amd64 python3.13-dev amd64 3.13.9-1 [504 kB] Get: 86 http://deb.debian.org/debian forky/main amd64 python3-dev amd64 3.13.7-1 [26.1 kB] Get: 87 http://deb.debian.org/debian forky/main amd64 python3-all-dev amd64 3.13.7-1 [1068 B] Get: 88 http://deb.debian.org/debian forky/main amd64 python3-autocommand all 2.2.2-3 [13.6 kB] Get: 89 http://deb.debian.org/debian forky/main amd64 python3-more-itertools all 10.8.0-1 [71.7 kB] Get: 90 http://deb.debian.org/debian forky/main amd64 python3-typing-extensions all 4.15.0-1 [92.4 kB] Get: 91 http://deb.debian.org/debian forky/main amd64 python3-typeguard all 4.4.4-1 [37.1 kB] Get: 92 http://deb.debian.org/debian forky/main amd64 python3-inflect all 7.5.0-1 [33.0 kB] Get: 93 http://deb.debian.org/debian forky/main amd64 python3-jaraco.functools all 4.1.0-1 [12.0 kB] Get: 94 http://deb.debian.org/debian forky/main amd64 python3-pkg-resources all 78.1.1-0.1 [224 kB] Get: 95 http://deb.debian.org/debian forky/main amd64 python3-jaraco.text all 4.0.0-1 [11.4 kB] Get: 96 http://deb.debian.org/debian forky/main amd64 python3-zipp all 3.23.0-1 [11.0 kB] Get: 97 http://deb.debian.org/debian forky/main amd64 python3-setuptools all 78.1.1-0.1 [738 kB] Get: 98 http://deb.debian.org/debian forky/main amd64 python3-jaraco.context all 6.0.1-1 [8276 B] Get: 99 http://deb.debian.org/debian forky/main amd64 rename all 2.02-1 [21.8 kB] Fetched 51.4 MB in 1s (71.5 MB/s) Preconfiguring packages ... Selecting previously unselected package libexpat1:amd64. (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 ... 19902 files and directories currently installed.) Preparing to unpack .../libexpat1_2.7.3-1_amd64.deb ... Unpacking libexpat1:amd64 (2.7.3-1) ... Selecting previously unselected package libpython3.13-minimal:amd64. Preparing to unpack .../libpython3.13-minimal_3.13.9-1_amd64.deb ... Unpacking libpython3.13-minimal:amd64 (3.13.9-1) ... 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Adding 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8 to /lib/x86_64-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8.2 to /lib/x86_64-linux-gnu/libhistory.so.8.2.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8 to /lib/x86_64-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8.2 to /lib/x86_64-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64' Unpacking libreadline8t64:amd64 (8.3-3) ... Selecting previously unselected package libpython3.13-stdlib:amd64. Preparing to unpack .../7-libpython3.13-stdlib_3.13.9-1_amd64.deb ... Unpacking libpython3.13-stdlib:amd64 (3.13.9-1) ... Selecting previously unselected package python3.13. Preparing to unpack .../8-python3.13_3.13.9-1_amd64.deb ... Unpacking python3.13 (3.13.9-1) ... Selecting previously unselected package libpython3-stdlib:amd64. 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Setting up python3-dev (3.13.7-1) ... Setting up cmake (4.1.1+really3.31.6-2) ... Setting up python3-pkg-resources (78.1.1-0.1) ... Setting up python3-all-dev (3.13.7-1) ... Setting up python3-setuptools (78.1.1-0.1) ... Processing triggers for libc-bin (2.41-12) ... Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps Reading package lists... Building dependency tree... Reading state information... fakeroot is already the newest version (1.37.1.2-1). Solving dependencies... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. I: Building the package I: Running cd /build/reproducible-path/libedlib-1.2.7/ && 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 > ../libedlib_1.2.7-7_source.changes dpkg-buildpackage: info: source package libedlib dpkg-buildpackage: info: source version 1.2.7-7 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Étienne Mollier dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean dh_auto_clean make -j12 clean make[1]: Entering directory '/build/reproducible-path/libedlib-1.2.7' rm -rf meson-build make[1]: Leaving directory '/build/reproducible-path/libedlib-1.2.7' dh_clean debian/rules binary dh binary dh_update_autotools_config dh_autoreconf debian/rules override_dh_auto_configure make[1]: Entering directory '/build/reproducible-path/libedlib-1.2.7' dh_auto_configure --buildsystem=cmake -- -DCMAKE_BUILD_TYPE=Release -DEDLIB_BUILD_EXAMPLES=False -DBUILD_TESTING=False -DEDLIB_OMIT_README_RST=1 -DBUILD_SHARED_LIBS=ON cd obj-x86_64-linux-gnu && DEB_PYTHON_INSTALL_LAYOUT=deb PKG_CONFIG=/usr/bin/pkg-config cmake -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_BUILD_TYPE=None -DCMAKE_INSTALL_SYSCONFDIR=/etc -DCMAKE_INSTALL_LOCALSTATEDIR=/var -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_FIND_USE_PACKAGE_REGISTRY=OFF -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DFETCHCONTENT_FULLY_DISCONNECTED=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run -DCMAKE_SKIP_INSTALL_ALL_DEPENDENCY=ON "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_INSTALL_LIBDIR=lib/x86_64-linux-gnu -DCMAKE_BUILD_TYPE=Release -DEDLIB_BUILD_EXAMPLES=False -DBUILD_TESTING=False -DEDLIB_OMIT_README_RST=1 -DBUILD_SHARED_LIBS=ON .. -- The C compiler identification is GNU 15.2.0 -- The CXX compiler identification is GNU 15.2.0 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/cc - skipped -- Detecting C compile features -- Detecting C compile features - done -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/bin/c++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done Setting warning flags -- Performing Test WOLD_STYLE_CAST -- Performing Test WOLD_STYLE_CAST - Success -- Performing Test WSHADOW -- Performing Test WSHADOW - Success -- Configuring done (1.0s) -- Generating done (0.0s) CMake Warning: Manually-specified variables were not used by the project: CMAKE_EXPORT_NO_PACKAGE_REGISTRY CMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY CMAKE_FIND_USE_PACKAGE_REGISTRY EDLIB_OMIT_README_RST FETCHCONTENT_FULLY_DISCONNECTED -- Build files have been written to: /build/reproducible-path/libedlib-1.2.7/obj-x86_64-linux-gnu make[1]: Leaving directory '/build/reproducible-path/libedlib-1.2.7' debian/rules override_dh_auto_build make[1]: Entering directory '/build/reproducible-path/libedlib-1.2.7' dh_auto_build --buildsystem=cmake cd obj-x86_64-linux-gnu && make -j12 INSTALL="install --strip-program=true" VERBOSE=1 make[2]: Entering directory '/build/reproducible-path/libedlib-1.2.7/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/libedlib-1.2.7 -B/build/reproducible-path/libedlib-1.2.7/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/libedlib-1.2.7/obj-x86_64-linux-gnu/CMakeFiles /build/reproducible-path/libedlib-1.2.7/obj-x86_64-linux-gnu//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[3]: Entering directory '/build/reproducible-path/libedlib-1.2.7/obj-x86_64-linux-gnu' make -f CMakeFiles/edlib.dir/build.make CMakeFiles/edlib.dir/depend make -f CMakeFiles/edlib_static.dir/build.make CMakeFiles/edlib_static.dir/depend make[4]: Entering directory '/build/reproducible-path/libedlib-1.2.7/obj-x86_64-linux-gnu' cd /build/reproducible-path/libedlib-1.2.7/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libedlib-1.2.7 /build/reproducible-path/libedlib-1.2.7 /build/reproducible-path/libedlib-1.2.7/obj-x86_64-linux-gnu /build/reproducible-path/libedlib-1.2.7/obj-x86_64-linux-gnu /build/reproducible-path/libedlib-1.2.7/obj-x86_64-linux-gnu/CMakeFiles/edlib.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/libedlib-1.2.7/obj-x86_64-linux-gnu' cd /build/reproducible-path/libedlib-1.2.7/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libedlib-1.2.7 /build/reproducible-path/libedlib-1.2.7 /build/reproducible-path/libedlib-1.2.7/obj-x86_64-linux-gnu /build/reproducible-path/libedlib-1.2.7/obj-x86_64-linux-gnu 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-fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wold-style-cast -Wshadow -Wall -Wextra -pedantic -O3 -DNDEBUG -std=c++14 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/edlib.dir/edlib/src/edlib.cpp.o -MF CMakeFiles/edlib.dir/edlib/src/edlib.cpp.o.d -o CMakeFiles/edlib.dir/edlib/src/edlib.cpp.o -c /build/reproducible-path/libedlib-1.2.7/edlib/src/edlib.cpp [ 33%] Building CXX object CMakeFiles/edlib_static.dir/edlib/src/edlib.cpp.o /usr/bin/c++ -I/build/reproducible-path/libedlib-1.2.7/edlib/include -g -O2 -ffile-prefix-map=/build/reproducible-path/libedlib-1.2.7=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wold-style-cast -Wshadow -Wall -Wextra -pedantic -O3 -DNDEBUG -std=c++14 -MD -MT CMakeFiles/edlib_static.dir/edlib/src/edlib.cpp.o -MF CMakeFiles/edlib_static.dir/edlib/src/edlib.cpp.o.d -o CMakeFiles/edlib_static.dir/edlib/src/edlib.cpp.o -c /build/reproducible-path/libedlib-1.2.7/edlib/src/edlib.cpp [ 50%] Linking CXX static library lib/libedlib_static.a /usr/bin/cmake -P CMakeFiles/edlib_static.dir/cmake_clean_target.cmake /usr/bin/cmake -E cmake_link_script CMakeFiles/edlib_static.dir/link.txt --verbose=1 /usr/bin/ar qc lib/libedlib_static.a CMakeFiles/edlib_static.dir/edlib/src/edlib.cpp.o /usr/bin/ranlib lib/libedlib_static.a make[4]: Leaving directory '/build/reproducible-path/libedlib-1.2.7/obj-x86_64-linux-gnu' [ 66%] Linking CXX shared library lib/libedlib.so /usr/bin/cmake -E cmake_link_script CMakeFiles/edlib.dir/link.txt --verbose=1 [ 66%] Built target edlib_static make -f CMakeFiles/edlib-aligner.dir/build.make CMakeFiles/edlib-aligner.dir/depend make[4]: Entering directory '/build/reproducible-path/libedlib-1.2.7/obj-x86_64-linux-gnu' cd /build/reproducible-path/libedlib-1.2.7/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libedlib-1.2.7 /build/reproducible-path/libedlib-1.2.7 /build/reproducible-path/libedlib-1.2.7/obj-x86_64-linux-gnu /build/reproducible-path/libedlib-1.2.7/obj-x86_64-linux-gnu /build/reproducible-path/libedlib-1.2.7/obj-x86_64-linux-gnu/CMakeFiles/edlib-aligner.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/libedlib-1.2.7/obj-x86_64-linux-gnu' make -f CMakeFiles/edlib-aligner.dir/build.make CMakeFiles/edlib-aligner.dir/build make[4]: Entering directory '/build/reproducible-path/libedlib-1.2.7/obj-x86_64-linux-gnu' [ 83%] Building CXX object CMakeFiles/edlib-aligner.dir/apps/aligner/aligner.cpp.o /usr/bin/c++ -I/build/reproducible-path/libedlib-1.2.7/edlib/include -g -O2 -ffile-prefix-map=/build/reproducible-path/libedlib-1.2.7=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wold-style-cast -Wshadow -Wall -Wextra -pedantic -O3 -DNDEBUG -std=c++14 -MD -MT CMakeFiles/edlib-aligner.dir/apps/aligner/aligner.cpp.o -MF CMakeFiles/edlib-aligner.dir/apps/aligner/aligner.cpp.o.d -o CMakeFiles/edlib-aligner.dir/apps/aligner/aligner.cpp.o -c /build/reproducible-path/libedlib-1.2.7/apps/aligner/aligner.cpp [100%] Linking CXX executable bin/edlib-aligner /usr/bin/cmake -E cmake_link_script CMakeFiles/edlib-aligner.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/libedlib-1.2.7=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wold-style-cast -Wshadow -Wall -Wextra -pedantic -O3 -DNDEBUG -Wl,--dependency-file=CMakeFiles/edlib.dir/link.d -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libedlib.so.1 -o lib/libedlib.so.1.2.7 CMakeFiles/edlib.dir/edlib/src/edlib.cpp.o /usr/bin/cmake -E cmake_symlink_library lib/libedlib.so.1.2.7 lib/libedlib.so.1 lib/libedlib.so make[4]: Leaving directory '/build/reproducible-path/libedlib-1.2.7/obj-x86_64-linux-gnu' [100%] Built target edlib ./apps/aligner/aligner.cpp: In function 'main': ./apps/aligner/aligner.cpp:175:25: warning: 'MEM[(int * *)&result + 8B]' may be used uninitialized [-Wmaybe-uninitialized] ./apps/aligner/aligner.cpp:167:26: note: 'MEM[(int * *)&result + 8B]' was declared here ./apps/aligner/aligner.cpp:176:27: warning: 'MEM[(int * *)&result + 16B]' may be used uninitialized [-Wmaybe-uninitialized] ./apps/aligner/aligner.cpp:167:26: note: 'MEM[(int * *)&result + 16B]' was declared here ./apps/aligner/aligner.cpp:202:13: warning: 'MEM[(unsigned char * *)&result + 32B]' may be used uninitialized [-Wmaybe-uninitialized] ./apps/aligner/aligner.cpp:167:26: note: 'MEM[(unsigned char * *)&result + 32B]' was declared here /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libedlib-1.2.7=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wold-style-cast -Wshadow -Wall -Wextra -pedantic -O3 -DNDEBUG -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/edlib-aligner.dir/link.d "CMakeFiles/edlib-aligner.dir/apps/aligner/aligner.cpp.o" -o bin/edlib-aligner lib/libedlib_static.a make[4]: Leaving directory '/build/reproducible-path/libedlib-1.2.7/obj-x86_64-linux-gnu' [100%] Built target edlib-aligner make[3]: Leaving directory '/build/reproducible-path/libedlib-1.2.7/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/libedlib-1.2.7/obj-x86_64-linux-gnu/CMakeFiles 0 make[2]: Leaving directory '/build/reproducible-path/libedlib-1.2.7/obj-x86_64-linux-gnu' # /usr/bin/make --directory=bindings/python EDLIB_OMIT_README_RST=1 /usr/bin/make --directory=bindings/python edlib pyedlib.bycython.cpp make[2]: Entering directory '/build/reproducible-path/libedlib-1.2.7/bindings/python' # create a clean (maybe updated) copy of edlib src rm -rf edlib && cp -r ../../edlib . cython3 --cplus edlib.pyx -o edlib.bycython.cpp /usr/lib/python3/dist-packages/Cython/Compiler/Main.py:381: FutureWarning: Cython directive 'language_level' not set, using '3str' for now (Py3). This has changed from earlier releases! File: /build/reproducible-path/libedlib-1.2.7/bindings/python/edlib.pyx tree = Parsing.p_module(s, pxd, full_module_name) make[2]: Leaving directory '/build/reproducible-path/libedlib-1.2.7/bindings/python' EDLIB_OMIT_README_RST=1 dh_auto_build --buildsystem=pybuild -- --dir bindings/python I: pybuild base:311: /usr/bin/python3 setup.py build running build running build_ext building 'edlib' extension creating build/temp.linux-x86_64-cpython-313 creating build/temp.linux-x86_64-cpython-313/edlib/src x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libedlib-1.2.7=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Iedlib/include -I/usr/include/python3.13 -c edlib.bycython.cpp -o build/temp.linux-x86_64-cpython-313/edlib.bycython.o -O3 -std=c++11 x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libedlib-1.2.7=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Iedlib/include -I/usr/include/python3.13 -c edlib/src/edlib.cpp -o build/temp.linux-x86_64-cpython-313/edlib/src/edlib.o -O3 -std=c++11 x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libedlib-1.2.7=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/reproducible-path/libedlib-1.2.7=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-cpython-313/edlib.bycython.o build/temp.linux-x86_64-cpython-313/edlib/src/edlib.o -L/usr/lib/x86_64-linux-gnu -o /build/reproducible-path/libedlib-1.2.7/.pybuild/cpython3_3.13_edlib/build/edlib.cpython-313-x86_64-linux-gnu.so make[1]: Leaving directory '/build/reproducible-path/libedlib-1.2.7' debian/rules override_dh_auto_test make[1]: Entering directory '/build/reproducible-path/libedlib-1.2.7' `find . -name edlib-aligner -type f -executable` -p apps/aligner/test_data/query.fasta apps/aligner/test_data/target.fasta Using NW alignment mode. Reading queries... Read 1 queries, 110 residues total. Reading target fasta file... Read target, 109 residues. Comparing queries to target... Query #0 (110 residues): score = 17 T: MMEEERFAASADEIFHVTQEVC-RTASELTESESRNVIVDELFCVGVTEM (0 - 48) ||||||| | |||||||||| ||||||||||||||||||||||||||| Q: MMEEERFKA---EIFHVTQEVCNRTASELTESESRNVIVDELFCVGVTEM (0 - 46) T: VAEQIRVLAKDIEA---HA-RKTVQPQDVLDDLCCRRNEGL-EIINNF-K (49 - 92) | |||||||||||| || |||||||||| ||||||||| |||||| | Q: VWEQIRVLAKDIEAFAEHAGRKTVQPQDVL--LCCRRNEGLYEIINNFHK (47 - 94) T: AESIKSKKKKKE-STTB (93 - 108) ||||||||||| ||| Q: -ESIKSKKKKKENSTT- (94 - 109) Cpu time of searching: 0.000074 `find . -name runTests` make[1]: Leaving directory '/build/reproducible-path/libedlib-1.2.7' create-stamp debian/debhelper-build-stamp dh_prep debian/rules override_dh_auto_install make[1]: Entering directory '/build/reproducible-path/libedlib-1.2.7' dh_auto_install --buildsystem=cmake cd obj-x86_64-linux-gnu && make -j12 install DESTDIR=/build/reproducible-path/libedlib-1.2.7/debian/tmp AM_UPDATE_INFO_DIR=no INSTALL="install --strip-program=true" make[2]: Entering directory '/build/reproducible-path/libedlib-1.2.7/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/libedlib-1.2.7 -B/build/reproducible-path/libedlib-1.2.7/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall make[3]: Entering directory '/build/reproducible-path/libedlib-1.2.7/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'preinstall'. make[3]: Leaving directory '/build/reproducible-path/libedlib-1.2.7/obj-x86_64-linux-gnu' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "Release" -- Installing: /build/reproducible-path/libedlib-1.2.7/debian/tmp/usr/lib/x86_64-linux-gnu/pkgconfig/edlib-1.pc -- Installing: /build/reproducible-path/libedlib-1.2.7/debian/tmp/usr/lib/x86_64-linux-gnu/cmake/edlib/edlib-config.cmake -- Installing: /build/reproducible-path/libedlib-1.2.7/debian/tmp/usr/lib/x86_64-linux-gnu/cmake/edlib/edlib-config-version.cmake -- Installing: /build/reproducible-path/libedlib-1.2.7/debian/tmp/usr/lib/x86_64-linux-gnu/cmake/edlib/edlib-targets.cmake -- Installing: /build/reproducible-path/libedlib-1.2.7/debian/tmp/usr/lib/x86_64-linux-gnu/cmake/edlib/edlib-targets-release.cmake -- Installing: /build/reproducible-path/libedlib-1.2.7/debian/tmp/usr/lib/x86_64-linux-gnu/libedlib.so.1.2.7 -- Installing: /build/reproducible-path/libedlib-1.2.7/debian/tmp/usr/lib/x86_64-linux-gnu/libedlib.so.1 -- Installing: /build/reproducible-path/libedlib-1.2.7/debian/tmp/usr/lib/x86_64-linux-gnu/libedlib.so -- Installing: /build/reproducible-path/libedlib-1.2.7/debian/tmp/usr/lib/x86_64-linux-gnu/libedlib_static.a -- Installing: /build/reproducible-path/libedlib-1.2.7/debian/tmp/usr/include/edlib.h make[2]: Leaving directory '/build/reproducible-path/libedlib-1.2.7/obj-x86_64-linux-gnu' dh_auto_install --buildsystem=pybuild -- --dir bindings/python I: pybuild base:311: /usr/bin/python3 setup.py install --root /build/reproducible-path/libedlib-1.2.7/debian/python3-edlib running install /usr/lib/python3/dist-packages/setuptools/_distutils/cmd.py:90: SetuptoolsDeprecationWarning: setup.py install is deprecated. !! ******************************************************************************** Please avoid running ``setup.py`` directly. Instead, use pypa/build, pypa/installer or other standards-based tools. See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details. ******************************************************************************** !! self.initialize_options() running build running build_ext running install_lib creating /build/reproducible-path/libedlib-1.2.7/debian/python3-edlib/usr/lib/python3.13/dist-packages copying /build/reproducible-path/libedlib-1.2.7/.pybuild/cpython3_3.13_edlib/build/edlib.cpython-313-x86_64-linux-gnu.so -> /build/reproducible-path/libedlib-1.2.7/debian/python3-edlib/usr/lib/python3.13/dist-packages running install_egg_info running egg_info creating edlib.egg-info writing edlib.egg-info/PKG-INFO writing dependency_links to edlib.egg-info/dependency_links.txt writing top-level names to edlib.egg-info/top_level.txt writing manifest file 'edlib.egg-info/SOURCES.txt' reading manifest file 'edlib.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' writing manifest file 'edlib.egg-info/SOURCES.txt' Copying edlib.egg-info to /build/reproducible-path/libedlib-1.2.7/debian/python3-edlib/usr/lib/python3.13/dist-packages/edlib-1.3.8.post2.egg-info Skipping SOURCES.txt running install_scripts make[1]: Leaving directory '/build/reproducible-path/libedlib-1.2.7' debian/rules override_dh_install make[1]: Entering directory '/build/reproducible-path/libedlib-1.2.7' dh_install file-rename 's/_static\.a/.a/' `find debian -name libedlib_static.a` d-shlibmove --commit \ --multiarch \ --devunversioned \ --exclude-la \ --movedev debian/tmp/usr/include/* usr/include \ --movedev debian/tmp/usr/lib/*/cmake usr/lib/x86_64-linux-gnu \ --movedev debian/tmp/usr/lib/*/pkgconfig usr/lib/x86_64-linux-gnu \ debian/tmp/usr/lib/*/*.so Library package automatic movement utility set -e install -d -m 755 debian/libedlib-dev/usr/lib/x86_64-linux-gnu install -d -m 755 debian/libedlib1/usr/lib/x86_64-linux-gnu mv debian/tmp/usr/lib/x86_64-linux-gnu/libedlib.a debian/libedlib-dev/usr/lib/x86_64-linux-gnu mv debian/tmp/usr/lib/x86_64-linux-gnu/libedlib.so debian/libedlib-dev/usr/lib/x86_64-linux-gnu mv /build/reproducible-path/libedlib-1.2.7/debian/tmp/usr/lib/x86_64-linux-gnu/libedlib.so.1 debian/libedlib1/usr/lib/x86_64-linux-gnu mv /build/reproducible-path/libedlib-1.2.7/debian/tmp/usr/lib/x86_64-linux-gnu/libedlib.so.1.2.7 debian/libedlib1/usr/lib/x86_64-linux-gnu PKGDEV=libedlib-dev PKGSHL=libedlib1 install -d -m 755 debian/libedlib-dev/usr/include mv debian/tmp/usr/include/edlib.h debian/libedlib-dev/usr/include install -d -m 755 debian/libedlib-dev/usr/lib/x86_64-linux-gnu mv debian/tmp/usr/lib/x86_64-linux-gnu/cmake debian/libedlib-dev/usr/lib/x86_64-linux-gnu install -d -m 755 debian/libedlib-dev/usr/lib/x86_64-linux-gnu mv debian/tmp/usr/lib/x86_64-linux-gnu/pkgconfig debian/libedlib-dev/usr/lib/x86_64-linux-gnu make[1]: Leaving directory '/build/reproducible-path/libedlib-1.2.7' dh_installdocs dh_installchangelogs dh_installexamples dh_installman dh_python3 dh_perl dh_link dh_strip_nondeterminism dh_compress dh_fixperms dh_missing dh_dwz -a dh_strip -a dh_makeshlibs -a dpkg-gensymbols: warning: debian/libedlib1/DEBIAN/symbols doesn't match completely debian/libedlib1.symbols --- debian/libedlib1.symbols (libedlib1_1.2.7-7_amd64) +++ dpkg-gensymbolsmn8eY2 2025-10-28 04:58:29.276546324 -1200 @@ -1,8 +1,8 @@ libedlib.so.1 libedlib1 #MINVER# * Build-Depends-Package: libedlib-dev - (optional)_ZNSt6vectorIcSaIcEE17_M_realloc_insertIJRKcEEEvN9__gnu_cxx17__normal_iteratorIPcS1_EEDpOT_@Base 1.2.4 - (optional)_ZNSt6vectorIcSaIcEE17_M_realloc_insertIJcEEEvN9__gnu_cxx17__normal_iteratorIPcS1_EEDpOT_@Base 1.2.4 - (optional)_ZNSt6vectorIiSaIiEE17_M_realloc_insertIJiEEEvN9__gnu_cxx17__normal_iteratorIPiS1_EEDpOT_@Base 1.2.3 +#MISSING: 1.2.7-7# (optional)_ZNSt6vectorIcSaIcEE17_M_realloc_insertIJRKcEEEvN9__gnu_cxx17__normal_iteratorIPcS1_EEDpOT_@Base 1.2.4 +#MISSING: 1.2.7-7# (optional)_ZNSt6vectorIcSaIcEE17_M_realloc_insertIJcEEEvN9__gnu_cxx17__normal_iteratorIPcS1_EEDpOT_@Base 1.2.4 +#MISSING: 1.2.7-7# (optional)_ZNSt6vectorIiSaIiEE17_M_realloc_insertIJiEEEvN9__gnu_cxx17__normal_iteratorIPiS1_EEDpOT_@Base 1.2.3 edlibAlign@Base 1.2.3 edlibAlignmentToCigar@Base 1.2.3 edlibDefaultAlignConfig@Base 1.2.3 dh_shlibdeps -a dh_installdeb dh_gencontrol dpkg-gencontrol: warning: Depends field of package libedlib-dev: substitution variable ${shlibs:Depends} used, but is not defined dh_md5sums dh_builddeb dpkg-deb: building package 'libedlib1-dbgsym' in '../libedlib1-dbgsym_1.2.7-7_amd64.deb'. dpkg-deb: building package 'libedlib1' in '../libedlib1_1.2.7-7_amd64.deb'. dpkg-deb: building package 'edlib-aligner' in '../edlib-aligner_1.2.7-7_amd64.deb'. dpkg-deb: building package 'libedlib-dev' in '../libedlib-dev_1.2.7-7_amd64.deb'. dpkg-deb: building package 'python3-edlib-dbgsym' in '../python3-edlib-dbgsym_1.2.7-7_amd64.deb'. dpkg-deb: building package 'edlib-aligner-dbgsym' in '../edlib-aligner-dbgsym_1.2.7-7_amd64.deb'. dpkg-deb: building package 'python3-edlib' in '../python3-edlib_1.2.7-7_amd64.deb'. dpkg-genbuildinfo --build=binary -O../libedlib_1.2.7-7_amd64.buildinfo dpkg-genchanges --build=binary -O../libedlib_1.2.7-7_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/3623522 and its subdirectories I: Current time: Tue Oct 28 04:58:32 -12 2025 I: pbuilder-time-stamp: 1761670712 Tue Oct 28 16:58:33 UTC 2025 I: 1st build successful. Starting 2nd build on remote node infom02-amd64.debian.net. Tue Oct 28 16:58:33 UTC 2025 I: Preparing to do remote build '2' on infom02-amd64.debian.net. Tue Oct 28 17:00:57 UTC 2025 I: Deleting $TMPDIR on infom02-amd64.debian.net. Tue Oct 28 17:00:58 UTC 2025 I: libedlib_1.2.7-7_amd64.changes: Format: 1.8 Date: Wed, 01 Oct 2025 20:16:10 +0200 Source: libedlib Binary: edlib-aligner edlib-aligner-dbgsym libedlib-dev libedlib1 libedlib1-dbgsym python3-edlib python3-edlib-dbgsym Architecture: amd64 Version: 1.2.7-7 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Étienne Mollier Description: edlib-aligner - edlib sequence alignment tool using edit distance libedlib-dev - library for sequence alignment using edit distance (devel) libedlib1 - library for sequence alignment using edit distance python3-edlib - library for sequence alignment using edit distance (Python3 modul Closes: 1113144 Changes: libedlib (1.2.7-7) unstable; urgency=medium . * cmake-4.patch: new: bump cmake requirement to 3.10. (Closes: #1113144) * d/control: declare compliance to standards version 4.7.2. * d/control: drop redundant Rules-Requires-Root: no. * d/patches/*: normalise Last-Update timestamp. * fix-package-version.patch: provide a dep3 header. * d/watch: convert to v5 Github template. Checksums-Sha1: f00162cae3d8523f451310eaf667e26b8452922a 113260 edlib-aligner-dbgsym_1.2.7-7_amd64.deb cf42a9707c07c2d01867bbb6ca285b4d4184ecec 24468 edlib-aligner_1.2.7-7_amd64.deb f4820cc84afcc67f57fb1d1e81530de52fa81f1d 23756 libedlib-dev_1.2.7-7_amd64.deb 71e985a7145eee47a45158946714da2ca10dd943 77776 libedlib1-dbgsym_1.2.7-7_amd64.deb 711af91bfa66490118705661623ee41897673011 18484 libedlib1_1.2.7-7_amd64.deb c763abf2c1e2755a0cb177c87ff8c85bbbe5c4c2 8775 libedlib_1.2.7-7_amd64.buildinfo 81627ab09a1b007178c095fb8d456f7e7dbebfaf 322672 python3-edlib-dbgsym_1.2.7-7_amd64.deb 85fa6ee36e3439df17ca49662c56bac2acc9d844 69000 python3-edlib_1.2.7-7_amd64.deb Checksums-Sha256: b41b1841b2093466d30c42aa2c109a672fb7e91a2362d8c36bf812ebef5f1471 113260 edlib-aligner-dbgsym_1.2.7-7_amd64.deb e0d0ad6262a61080120b0ab300a0702b8133103639b04cdf99196c12fe817f96 24468 edlib-aligner_1.2.7-7_amd64.deb 8e3ddb4b42f91a8388765051f654c3beff5cbaf0a444a18dd8d9d9e39d9a44a4 23756 libedlib-dev_1.2.7-7_amd64.deb bdf38dd7eaa61c8cbf83f1b91a89d2ec63b94b470cad7ccd43877c04af16a200 77776 libedlib1-dbgsym_1.2.7-7_amd64.deb a7c6fb2998f4976457832764872042d7f1dfc0641e852572f3238258c7a643a6 18484 libedlib1_1.2.7-7_amd64.deb a89bff0e0b8f68b1ac3a7f39bceb83746aa6d565e23e6a7eb12b4ee85f87dd81 8775 libedlib_1.2.7-7_amd64.buildinfo 089cc0460dd419ccbcea2ecdc67f37319e8270e8815e9455532033dfadee270c 322672 python3-edlib-dbgsym_1.2.7-7_amd64.deb cbbda65cbd52b4f171c662d3a944fe5175f11f07f483db68f23418bf2f0ed1d0 69000 python3-edlib_1.2.7-7_amd64.deb Files: e191c94a1e39389a622fd56202960e08 113260 debug optional edlib-aligner-dbgsym_1.2.7-7_amd64.deb e3f11bba9cefb7e1081d3ea111052cdf 24468 science optional edlib-aligner_1.2.7-7_amd64.deb 7b94935507e2094c147e538003c15c2d 23756 libdevel optional libedlib-dev_1.2.7-7_amd64.deb 4747f27c65d760b57a7284fb3e1540d7 77776 debug optional libedlib1-dbgsym_1.2.7-7_amd64.deb c5766c107ead51eca10dc3ad49dea0e0 18484 libs optional libedlib1_1.2.7-7_amd64.deb 7766c74414b96113062d0f23f3d93f2f 8775 science optional libedlib_1.2.7-7_amd64.buildinfo 3fff5385d9954d5caa76fc7c260c97b4 322672 debug optional python3-edlib-dbgsym_1.2.7-7_amd64.deb 86fd1e79677105ef882a69c8a936ffb2 69000 python optional python3-edlib_1.2.7-7_amd64.deb Tue Oct 28 17:00:59 UTC 2025 I: diffoscope 306 will be used to compare the two builds: Running as unit: rb-diffoscope-amd64_33-88004.service; invocation ID: ec6718f71544488ea14d60fe1cd95ebd # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.yF48jMoY/libedlib_1.2.7-7.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.yF48jMoY/libedlib_1.2.7-7.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.yF48jMoY/libedlib_1.2.7-7.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.yF48jMoY/b1/libedlib_1.2.7-7_amd64.changes /srv/reproducible-results/rbuild-debian/r-b-build.yF48jMoY/b2/libedlib_1.2.7-7_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 diffoscope.comparators.binary.FilesystemFile ## main (total time: 0.003s) 0.003s 2 calls outputs 0.000s 1 call cleanup Finished with result: success Main processes terminated with: code=exited, status=0/SUCCESS Service runtime: 194ms CPU time consumed: 177ms Memory peak: 18M (swap: 0B) Tue Oct 28 17:00:59 UTC 2025 I: diffoscope 306 found no differences in the changes files, and a .buildinfo file also exists. Tue Oct 28 17:00:59 UTC 2025 I: libedlib from forky built successfully and reproducibly on amd64. Tue Oct 28 17:01:00 UTC 2025 I: Removing signed libedlib_1.2.7-7_amd64.buildinfo.asc files: removed './b1/libedlib_1.2.7-7_amd64.buildinfo.asc' removed './b2/libedlib_1.2.7-7_amd64.buildinfo.asc'