Sat Nov 23 02:54:34 UTC 2024 I: starting to build abpoa/unstable/amd64 on jenkins on '2024-11-23 02:54' Sat Nov 23 02:54:34 UTC 2024 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/amd64_23/39329/console.log Sat Nov 23 02:54:34 UTC 2024 I: Downloading source for unstable/abpoa=1.5.3-1 --2024-11-23 02:54:35-- http://deb.debian.org/debian/pool/main/a/abpoa/abpoa_1.5.3-1.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2276 (2.2K) [text/prs.lines.tag] Saving to: ‘abpoa_1.5.3-1.dsc’ 0K .. 100% 300M=0s 2024-11-23 02:54:35 (300 MB/s) - ‘abpoa_1.5.3-1.dsc’ saved [2276/2276] Sat Nov 23 02:54:35 UTC 2024 I: abpoa_1.5.3-1.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: abpoa Binary: abpoa, python3-pyabpoa Architecture: any Version: 1.5.3-1 Maintainer: Debian Med Packaging Team Uploaders: Étienne Mollier Homepage: https://github.com/yangao07/abPOA Standards-Version: 4.7.0 Vcs-Browser: https://salsa.debian.org/med-team/abpoa Vcs-Git: https://salsa.debian.org/med-team/abpoa.git Testsuite: autopkgtest, autopkgtest-pkg-python Build-Depends: debhelper-compat (= 13), dh-python, cython3, graphviz , libsimde-dev, libpython3-all-dev, python3-all-dev:any, python3-setuptools, python3-wheel, zlib1g-dev Package-List: abpoa deb science optional arch=any python3-pyabpoa deb python optional arch=any Checksums-Sha1: 8886087aa919b09058022eb8cefb3b61c7071cdc 163420 abpoa_1.5.3.orig.tar.gz 4ab0298e05aaaba1b2543fd02c79e946abf3d17e 9836 abpoa_1.5.3-1.debian.tar.xz Checksums-Sha256: 9e4b98b8bcc50c4c139824c24b055004140b59677ba0f54bd29a8150606ec17e 163420 abpoa_1.5.3.orig.tar.gz 6f6309a4a38988f078c7569082a9bede5b6548455b9ed68ec001c4d729ce7202 9836 abpoa_1.5.3-1.debian.tar.xz Files: d3a71c5318fb463e1e884029584cd2dd 163420 abpoa_1.5.3.orig.tar.gz 6126124b8128a44dc0438a8260fd8410 9836 abpoa_1.5.3-1.debian.tar.xz Dgit: d1e006748b179fbb833ca2bd4099cd16b729231e debian archive/debian/1.5.3-1 https://git.dgit.debian.org/abpoa -----BEGIN PGP SIGNATURE----- iQJIBAEBCgAyFiEEj5GyJ8fW8rGUjII2eTz2fo8NEdoFAmb0YBoUHGVtb2xsaWVy QGRlYmlhbi5vcmcACgkQeTz2fo8NEdqGBA/+KPiETp88kvayUtpaKSUW3XBxTOXW l/eT+RIkjB9LPSKe4zdUz8tpmSNlY2+XiGBp4gKHPBpsDbN+IlPXe3Tiis/1Tm5Z ximf6b0IVzM9ijgFy0Bml5BAroBhYloQjILyQ+ldIOdV8XPYP7MDgTFexqaZhLMh eIvxh8AGeiqIZxx5F2Vh7rYTvMtfEswCpYEzQubehI4qNbmbd81+ib/ObuyPo2Ao mMUOru6PRZx/ft8cjXcbvVoY1zhQBCwxjfxy+8frwNSGt5lVI0a6BvMhbNQvKpri ncZMyOQf2ZqMbuMkmMWFy4iA3fmt5XfLl0MlK31n4/Zwe1fz7fJ70OvMCVD/yzeX h18aNoK3TKdrsoiVIOVsOG9D3SMbqXYVQZqOPIO2F4K725KqVq7c8X5moTjMTxvA NmN7TG12UqCtXxoO62LhzZqVBDQvCM/XJ9R82VS9oBrsffr2z4caZoqX6vOMBfub m+2szEkk7viXRIF+OFe8J1VqWNR7CKwMX0DSsmlyfDYCrDPU/8Z7/enFr1l9sZtk 59tqJvdDrtqxZpCWrQcvs0C6qbR3ZfAyajRA876zHAXTD04u275SzA66TSDlJKUO ditk6Ge+qtM40ykxAyd/wmmAmgGb68m2I0bikyurrYgCmSnodV1bF0iQ8s87WUnO u/a+otXYA+Jotxg= =Z6Y6 -----END PGP SIGNATURE----- Sat Nov 23 02:54:35 UTC 2024 I: Checking whether the package is not for us Sat Nov 23 02:54:35 UTC 2024 I: Starting 1st build on remote node ionos11-amd64.debian.net. Sat Nov 23 02:54:35 UTC 2024 I: Preparing to do remote build '1' on ionos11-amd64.debian.net. Sat Nov 23 03:09:16 UTC 2024 I: Deleting $TMPDIR on ionos11-amd64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Fri Nov 22 14:54:37 -12 2024 I: pbuilder-time-stamp: 1732330477 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [abpoa_1.5.3-1.dsc] I: copying [./abpoa_1.5.3.orig.tar.gz] I: copying [./abpoa_1.5.3-1.debian.tar.xz] I: Extracting source gpgv: Signature made Wed Sep 25 19:10:18 2024 gpgv: using RSA key 8F91B227C7D6F2B1948C8236793CF67E8F0D11DA gpgv: issuer "emollier@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./abpoa_1.5.3-1.dsc: no acceptable signature found dpkg-source: info: extracting abpoa in abpoa-1.5.3 dpkg-source: info: unpacking abpoa_1.5.3.orig.tar.gz dpkg-source: info: unpacking abpoa_1.5.3-1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying debian-simde.patch dpkg-source: info: applying buildflags.patch dpkg-source: info: applying baseline.patch dpkg-source: info: applying relax-cython-dep.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/647810/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=20 ' DISTRIBUTION='unstable' HOME='/root' HOST_ARCH='amd64' IFS=' ' INVOCATION_ID='aa72205e6b2540a99668e06309895bb5' 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='647810' 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.v594Uh7U/pbuilderrc_P5fr --distribution unstable --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.v594Uh7U/b1 --logfile b1/build.log abpoa_1.5.3-1.dsc' SUDO_GID='111' SUDO_UID='106' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://46.16.76.132:3128' I: uname -a Linux ionos11-amd64 6.1.0-27-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.115-1 (2024-11-01) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Aug 4 21:30 /bin -> usr/bin I: user script /srv/workspace/pbuilder/647810/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), dh-python, cython3, graphviz, libsimde-dev, libpython3-all-dev, python3-all-dev:any, python3-setuptools, python3-wheel, zlib1g-dev dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19966 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 dh-python; however: Package dh-python is not installed. pbuilder-satisfydepends-dummy depends on cython3; however: Package cython3 is not installed. pbuilder-satisfydepends-dummy depends on graphviz; however: Package graphviz is not installed. pbuilder-satisfydepends-dummy depends on libsimde-dev; however: Package libsimde-dev is not installed. pbuilder-satisfydepends-dummy depends on libpython3-all-dev; however: Package libpython3-all-dev is not installed. pbuilder-satisfydepends-dummy depends on python3-all-dev:any. pbuilder-satisfydepends-dummy depends on python3-setuptools; however: Package python3-setuptools is not installed. pbuilder-satisfydepends-dummy depends on python3-wheel; however: Package python3-wheel is not installed. pbuilder-satisfydepends-dummy depends on zlib1g-dev; however: Package zlib1g-dev is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} cython3{a} debhelper{a} dh-autoreconf{a} dh-python{a} dh-strip-nondeterminism{a} dwz{a} file{a} fontconfig{a} fontconfig-config{a} fonts-dejavu-core{a} fonts-dejavu-mono{a} gettext{a} gettext-base{a} graphviz{a} groff-base{a} intltool-debian{a} libabsl20230802{a} libann0{a} libaom3{a} libarchive-zip-perl{a} libavif16{a} libbrotli1{a} libcairo2{a} libcdt5{a} libcgraph6{a} libcom-err2{a} libdatrie1{a} libdav1d7{a} libde265-0{a} libdebhelper-perl{a} libdeflate0{a} libelf1t64{a} libexpat1{a} libexpat1-dev{a} libfile-stripnondeterminism-perl{a} libfontconfig1{a} libfreetype6{a} libfribidi0{a} libgav1-1{a} libgd3{a} libglib2.0-0t64{a} libgraphite2-3{a} libgssapi-krb5-2{a} libgts-0.7-5t64{a} libgvc6{a} libgvpr2{a} libharfbuzz0b{a} libheif-plugin-dav1d{a} libheif-plugin-libde265{a} libheif1{a} libice6{a} libicu72{a} libimagequant0{a} libjbig0{a} libjpeg62-turbo{a} libjs-jquery{a} libjs-sphinxdoc{a} libjs-underscore{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} liblab-gamut1{a} liblerc4{a} libltdl7{a} libmagic-mgc{a} libmagic1t64{a} libnsl2{a} libpango-1.0-0{a} libpangocairo-1.0-0{a} libpangoft2-1.0-0{a} libpathplan4{a} libpipeline1{a} libpixman-1-0{a} libpng16-16t64{a} libpython3-all-dev{a} libpython3-dev{a} libpython3-stdlib{a} libpython3.12-dev{a} libpython3.12-minimal{a} libpython3.12-stdlib{a} libpython3.12t64{a} libpython3.13{a} libpython3.13-dev{a} libpython3.13-minimal{a} libpython3.13-stdlib{a} libraqm0{a} librav1e0.7{a} libreadline8t64{a} libsharpyuv0{a} libsimde-dev{a} libsm6{a} libsvtav1enc2{a} libthai-data{a} libthai0{a} libtiff6{a} libtirpc-common{a} libtirpc3t64{a} libtool{a} libuchardet0{a} libwebp7{a} libx11-6{a} libx11-data{a} libxau6{a} libxaw7{a} libxcb-render0{a} libxcb-shm0{a} libxcb1{a} libxdmcp6{a} libxext6{a} libxml2{a} libxmu6{a} libxpm4{a} libxrender1{a} libxt6t64{a} libyuv0{a} m4{a} man-db{a} media-types{a} netbase{a} po-debconf{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-wheel{a} python3-zipp{a} python3.12{a} python3.12-dev{a} python3.12-minimal{a} python3.13{a} python3.13-dev{a} python3.13-minimal{a} readline-common{a} sensible-utils{a} tzdata{a} x11-common{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: ca-certificates curl fonts-liberation javascript-common krb5-locales libarchive-cpio-perl libglib2.0-data libgts-bin libheif-plugin-aomenc libheif-plugin-x265 libltdl-dev libmail-sendmail-perl lynx shared-mime-info wget xdg-user-dirs 0 packages upgraded, 154 newly installed, 0 to remove and 0 not upgraded. Need to get 75.2 MB of archives. After unpacking 298 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian unstable/main amd64 libpython3.12-minimal amd64 3.12.7-3 [815 kB] Get: 2 http://deb.debian.org/debian unstable/main amd64 libexpat1 amd64 2.6.4-1 [106 kB] Get: 3 http://deb.debian.org/debian unstable/main amd64 python3.12-minimal amd64 3.12.7-3 [2162 kB] Get: 4 http://deb.debian.org/debian unstable/main amd64 python3-minimal amd64 3.12.7-1 [26.8 kB] Get: 5 http://deb.debian.org/debian unstable/main amd64 media-types all 10.1.0 [26.9 kB] Get: 6 http://deb.debian.org/debian unstable/main amd64 netbase all 6.4 [12.8 kB] Get: 7 http://deb.debian.org/debian unstable/main amd64 tzdata all 2024b-3 [255 kB] Get: 8 http://deb.debian.org/debian unstable/main amd64 libkrb5support0 amd64 1.21.3-3 [32.5 kB] Get: 9 http://deb.debian.org/debian unstable/main amd64 libcom-err2 amd64 1.47.1-1+b1 [23.2 kB] Get: 10 http://deb.debian.org/debian unstable/main amd64 libk5crypto3 amd64 1.21.3-3 [79.9 kB] Get: 11 http://deb.debian.org/debian unstable/main amd64 libkeyutils1 amd64 1.6.3-4 [9092 B] Get: 12 http://deb.debian.org/debian unstable/main amd64 libkrb5-3 amd64 1.21.3-3 [324 kB] Get: 13 http://deb.debian.org/debian unstable/main amd64 libgssapi-krb5-2 amd64 1.21.3-3 [136 kB] Get: 14 http://deb.debian.org/debian unstable/main amd64 libtirpc-common all 1.3.4+ds-1.3 [10.9 kB] Get: 15 http://deb.debian.org/debian unstable/main amd64 libtirpc3t64 amd64 1.3.4+ds-1.3+b1 [83.1 kB] Get: 16 http://deb.debian.org/debian unstable/main amd64 libnsl2 amd64 1.3.0-3+b3 [40.6 kB] Get: 17 http://deb.debian.org/debian unstable/main amd64 readline-common all 8.2-5 [69.3 kB] Get: 18 http://deb.debian.org/debian unstable/main amd64 libreadline8t64 amd64 8.2-5 [169 kB] Get: 19 http://deb.debian.org/debian unstable/main amd64 libpython3.12-stdlib amd64 3.12.7-3 [1966 kB] Get: 20 http://deb.debian.org/debian unstable/main amd64 python3.12 amd64 3.12.7-3 [671 kB] Get: 21 http://deb.debian.org/debian unstable/main amd64 libpython3-stdlib amd64 3.12.7-1 [9712 B] Get: 22 http://deb.debian.org/debian unstable/main amd64 python3 amd64 3.12.7-1 [27.8 kB] Get: 23 http://deb.debian.org/debian unstable/main amd64 libpython3.13-minimal amd64 3.13.0-2 [856 kB] Get: 24 http://deb.debian.org/debian unstable/main amd64 python3.13-minimal amd64 3.13.0-2 [2038 kB] Get: 25 http://deb.debian.org/debian unstable/main amd64 sensible-utils all 0.0.24 [24.8 kB] Get: 26 http://deb.debian.org/debian unstable/main amd64 libmagic-mgc amd64 1:5.45-3+b1 [314 kB] Get: 27 http://deb.debian.org/debian unstable/main amd64 libmagic1t64 amd64 1:5.45-3+b1 [108 kB] Get: 28 http://deb.debian.org/debian unstable/main amd64 file amd64 1:5.45-3+b1 [43.3 kB] Get: 29 http://deb.debian.org/debian unstable/main amd64 gettext-base amd64 0.22.5-2 [200 kB] Get: 30 http://deb.debian.org/debian unstable/main amd64 libuchardet0 amd64 0.0.8-1+b2 [68.9 kB] Get: 31 http://deb.debian.org/debian unstable/main amd64 groff-base amd64 1.23.0-5 [1181 kB] Get: 32 http://deb.debian.org/debian unstable/main amd64 bsdextrautils amd64 2.40.2-11 [91.5 kB] Get: 33 http://deb.debian.org/debian unstable/main amd64 libpipeline1 amd64 1.5.8-1 [42.0 kB] Get: 34 http://deb.debian.org/debian unstable/main amd64 man-db amd64 2.13.0-1 [1420 kB] Get: 35 http://deb.debian.org/debian unstable/main amd64 m4 amd64 1.4.19-4 [287 kB] Get: 36 http://deb.debian.org/debian unstable/main amd64 autoconf all 2.72-3 [493 kB] Get: 37 http://deb.debian.org/debian unstable/main amd64 autotools-dev all 20220109.1 [51.6 kB] Get: 38 http://deb.debian.org/debian unstable/main amd64 automake all 1:1.16.5-1.3 [823 kB] Get: 39 http://deb.debian.org/debian unstable/main amd64 autopoint all 0.22.5-2 [723 kB] Get: 40 http://deb.debian.org/debian unstable/main amd64 cython3 amd64 3.0.11+dfsg-1+b1 [3157 kB] Get: 41 http://deb.debian.org/debian unstable/main amd64 libdebhelper-perl all 13.20 [89.7 kB] Get: 42 http://deb.debian.org/debian unstable/main amd64 libtool all 2.4.7-8 [517 kB] Get: 43 http://deb.debian.org/debian unstable/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 44 http://deb.debian.org/debian unstable/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 45 http://deb.debian.org/debian unstable/main amd64 libfile-stripnondeterminism-perl all 1.14.0-1 [19.5 kB] Get: 46 http://deb.debian.org/debian unstable/main amd64 dh-strip-nondeterminism all 1.14.0-1 [8448 B] Get: 47 http://deb.debian.org/debian unstable/main amd64 libelf1t64 amd64 0.192-4 [189 kB] Get: 48 http://deb.debian.org/debian unstable/main amd64 dwz amd64 0.15-1+b1 [110 kB] Get: 49 http://deb.debian.org/debian unstable/main amd64 libicu72 amd64 72.1-5+b1 [9423 kB] Get: 50 http://deb.debian.org/debian unstable/main amd64 libxml2 amd64 2.12.7+dfsg+really2.9.14-0.2+b1 [699 kB] Get: 51 http://deb.debian.org/debian unstable/main amd64 gettext amd64 0.22.5-2 [1601 kB] Get: 52 http://deb.debian.org/debian unstable/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 53 http://deb.debian.org/debian unstable/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 54 http://deb.debian.org/debian unstable/main amd64 debhelper all 13.20 [915 kB] Get: 55 http://deb.debian.org/debian unstable/main amd64 python3-autocommand all 2.2.2-3 [13.6 kB] Get: 56 http://deb.debian.org/debian unstable/main amd64 python3-more-itertools all 10.5.0-1 [63.8 kB] Get: 57 http://deb.debian.org/debian unstable/main amd64 python3-typing-extensions all 4.12.2-2 [73.0 kB] Get: 58 http://deb.debian.org/debian unstable/main amd64 python3-typeguard all 4.4.1-1 [37.0 kB] Get: 59 http://deb.debian.org/debian unstable/main amd64 python3-inflect all 7.3.1-2 [32.4 kB] Get: 60 http://deb.debian.org/debian unstable/main amd64 python3-jaraco.context all 6.0.0-1 [7984 B] Get: 61 http://deb.debian.org/debian unstable/main amd64 python3-jaraco.functools all 4.1.0-1 [12.0 kB] Get: 62 http://deb.debian.org/debian unstable/main amd64 python3-pkg-resources all 75.2.0-1 [213 kB] Get: 63 http://deb.debian.org/debian unstable/main amd64 python3-jaraco.text all 4.0.0-1 [11.4 kB] Get: 64 http://deb.debian.org/debian unstable/main amd64 python3-zipp all 3.21.0-1 [10.6 kB] Get: 65 http://deb.debian.org/debian unstable/main amd64 python3-setuptools all 75.2.0-1 [731 kB] Get: 66 http://deb.debian.org/debian unstable/main amd64 dh-python all 6.20241024 [109 kB] Get: 67 http://deb.debian.org/debian unstable/main amd64 libbrotli1 amd64 1.1.0-2+b6 [302 kB] Get: 68 http://deb.debian.org/debian unstable/main amd64 libpng16-16t64 amd64 1.6.44-2 [280 kB] Get: 69 http://deb.debian.org/debian unstable/main amd64 libfreetype6 amd64 2.13.3+dfsg-1 [452 kB] Get: 70 http://deb.debian.org/debian unstable/main amd64 fonts-dejavu-mono all 2.37-8 [489 kB] Get: 71 http://deb.debian.org/debian unstable/main amd64 fonts-dejavu-core all 2.37-8 [840 kB] Get: 72 http://deb.debian.org/debian unstable/main amd64 fontconfig-config amd64 2.15.0-1.1+b1 [318 kB] Get: 73 http://deb.debian.org/debian unstable/main amd64 libfontconfig1 amd64 2.15.0-1.1+b1 [391 kB] Get: 74 http://deb.debian.org/debian unstable/main amd64 fontconfig amd64 2.15.0-1.1+b1 [463 kB] Get: 75 http://deb.debian.org/debian unstable/main amd64 libann0 amd64 1.1.2+doc-9+b1 [25.1 kB] Get: 76 http://deb.debian.org/debian unstable/main amd64 libcdt5 amd64 2.42.4-2+b1 [40.5 kB] Get: 77 http://deb.debian.org/debian unstable/main amd64 libcgraph6 amd64 2.42.4-2+b1 [64.2 kB] Get: 78 http://deb.debian.org/debian unstable/main amd64 libaom3 amd64 3.11.0-1 [1879 kB] Get: 79 http://deb.debian.org/debian unstable/main amd64 libdav1d7 amd64 1.5.0-1+b1 [550 kB] Get: 80 http://deb.debian.org/debian unstable/main amd64 libabsl20230802 amd64 20230802.1-4 [464 kB] Get: 81 http://deb.debian.org/debian unstable/main amd64 libgav1-1 amd64 0.19.0-2+b2 [350 kB] Get: 82 http://deb.debian.org/debian unstable/main amd64 librav1e0.7 amd64 0.7.1-7+b2 [936 kB] Get: 83 http://deb.debian.org/debian unstable/main amd64 libsvtav1enc2 amd64 2.2.1+dfsg-2 [2173 kB] Get: 84 http://deb.debian.org/debian unstable/main amd64 libjpeg62-turbo amd64 1:2.1.5-3+b1 [168 kB] Get: 85 http://deb.debian.org/debian unstable/main amd64 libyuv0 amd64 0.0.1897.20241115-1 [172 kB] Get: 86 http://deb.debian.org/debian unstable/main amd64 libavif16 amd64 1.1.1-1 [117 kB] Get: 87 http://deb.debian.org/debian unstable/main amd64 libsharpyuv0 amd64 1.4.0-0.1+b1 [113 kB] Get: 88 http://deb.debian.org/debian unstable/main amd64 libheif-plugin-dav1d amd64 1.19.3-1 [11.2 kB] Get: 89 http://deb.debian.org/debian unstable/main amd64 libde265-0 amd64 1.0.15-1+b2 [189 kB] Get: 90 http://deb.debian.org/debian unstable/main amd64 libheif-plugin-libde265 amd64 1.19.3-1 [15.0 kB] Get: 91 http://deb.debian.org/debian unstable/main amd64 libheif1 amd64 1.19.3-1 [489 kB] Get: 92 http://deb.debian.org/debian unstable/main amd64 libimagequant0 amd64 2.18.0-1+b2 [35.2 kB] Get: 93 http://deb.debian.org/debian unstable/main amd64 libfribidi0 amd64 1.0.15-1 [71.8 kB] Get: 94 http://deb.debian.org/debian unstable/main amd64 libglib2.0-0t64 amd64 2.82.2-3 [1501 kB] Get: 95 http://deb.debian.org/debian unstable/main amd64 libgraphite2-3 amd64 1.3.14-2+b1 [75.4 kB] Get: 96 http://deb.debian.org/debian unstable/main amd64 libharfbuzz0b amd64 10.0.1-1 [477 kB] Get: 97 http://deb.debian.org/debian unstable/main amd64 libraqm0 amd64 0.10.1-1+b2 [14.1 kB] Get: 98 http://deb.debian.org/debian unstable/main amd64 libdeflate0 amd64 1.22-1 [47.3 kB] Get: 99 http://deb.debian.org/debian unstable/main amd64 libjbig0 amd64 2.1-6.1+b2 [32.1 kB] Get: 100 http://deb.debian.org/debian unstable/main amd64 liblerc4 amd64 4.0.0+ds-5 [183 kB] Get: 101 http://deb.debian.org/debian unstable/main amd64 libwebp7 amd64 1.4.0-0.1+b1 [313 kB] Get: 102 http://deb.debian.org/debian unstable/main amd64 libtiff6 amd64 4.5.1+git230720-5 [324 kB] Get: 103 http://deb.debian.org/debian unstable/main amd64 libxau6 amd64 1:1.0.11-1 [20.4 kB] Get: 104 http://deb.debian.org/debian unstable/main amd64 libxdmcp6 amd64 1:1.1.5-1 [27.8 kB] Get: 105 http://deb.debian.org/debian unstable/main amd64 libxcb1 amd64 1.17.0-2+b1 [144 kB] Get: 106 http://deb.debian.org/debian unstable/main amd64 libx11-data all 2:1.8.10-2 [337 kB] Get: 107 http://deb.debian.org/debian unstable/main amd64 libx11-6 amd64 2:1.8.10-2 [813 kB] Get: 108 http://deb.debian.org/debian unstable/main amd64 libxpm4 amd64 1:3.5.17-1+b2 [56.3 kB] Get: 109 http://deb.debian.org/debian unstable/main amd64 libgd3 amd64 2.3.3-12+b1 [126 kB] Get: 110 http://deb.debian.org/debian unstable/main amd64 libgts-0.7-5t64 amd64 0.7.6+darcs121130-5.2+b1 [160 kB] Get: 111 http://deb.debian.org/debian unstable/main amd64 libpixman-1-0 amd64 0.44.0-3 [248 kB] Get: 112 http://deb.debian.org/debian unstable/main amd64 libxcb-render0 amd64 1.17.0-2+b1 [115 kB] Get: 113 http://deb.debian.org/debian unstable/main amd64 libxcb-shm0 amd64 1.17.0-2+b1 [105 kB] Get: 114 http://deb.debian.org/debian unstable/main amd64 libxext6 amd64 2:1.3.4-1+b2 [50.5 kB] Get: 115 http://deb.debian.org/debian unstable/main amd64 libxrender1 amd64 1:0.9.10-1.1+b2 [27.8 kB] Get: 116 http://deb.debian.org/debian unstable/main amd64 libcairo2 amd64 1.18.2-2 [535 kB] Get: 117 http://deb.debian.org/debian unstable/main amd64 libltdl7 amd64 2.4.7-8 [393 kB] Get: 118 http://deb.debian.org/debian unstable/main amd64 libthai-data all 0.1.29-2 [168 kB] Get: 119 http://deb.debian.org/debian unstable/main amd64 libdatrie1 amd64 0.2.13-3+b1 [38.1 kB] Get: 120 http://deb.debian.org/debian unstable/main amd64 libthai0 amd64 0.1.29-2+b1 [49.4 kB] Get: 121 http://deb.debian.org/debian unstable/main amd64 libpango-1.0-0 amd64 1.54.0+ds-3 [223 kB] Get: 122 http://deb.debian.org/debian unstable/main amd64 libpangoft2-1.0-0 amd64 1.54.0+ds-3 [54.2 kB] Get: 123 http://deb.debian.org/debian unstable/main amd64 libpangocairo-1.0-0 amd64 1.54.0+ds-3 [35.2 kB] Get: 124 http://deb.debian.org/debian unstable/main amd64 libpathplan4 amd64 2.42.4-2+b1 [42.8 kB] Get: 125 http://deb.debian.org/debian unstable/main amd64 libgvc6 amd64 2.42.4-2+b1 [685 kB] Get: 126 http://deb.debian.org/debian unstable/main amd64 libgvpr2 amd64 2.42.4-2+b1 [193 kB] Get: 127 http://deb.debian.org/debian unstable/main amd64 liblab-gamut1 amd64 2.42.4-2+b1 [198 kB] Get: 128 http://deb.debian.org/debian unstable/main amd64 x11-common all 1:7.7+23.1 [216 kB] Get: 129 http://deb.debian.org/debian unstable/main amd64 libice6 amd64 2:1.1.1-1 [65.4 kB] Get: 130 http://deb.debian.org/debian unstable/main amd64 libsm6 amd64 2:1.2.4-1 [35.2 kB] Get: 131 http://deb.debian.org/debian unstable/main amd64 libxt6t64 amd64 1:1.2.1-1.2+b1 [188 kB] Get: 132 http://deb.debian.org/debian unstable/main amd64 libxmu6 amd64 2:1.1.3-3+b3 [58.8 kB] Get: 133 http://deb.debian.org/debian unstable/main amd64 libxaw7 amd64 2:1.0.16-1 [212 kB] Get: 134 http://deb.debian.org/debian unstable/main amd64 graphviz amd64 2.42.4-2+b1 [616 kB] Get: 135 http://deb.debian.org/debian unstable/main amd64 libexpat1-dev amd64 2.6.4-1 [158 kB] Get: 136 http://deb.debian.org/debian unstable/main amd64 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [326 kB] Get: 137 http://deb.debian.org/debian unstable/main amd64 libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [116 kB] Get: 138 http://deb.debian.org/debian unstable/main amd64 libjs-sphinxdoc all 7.4.7-4 [158 kB] Get: 139 http://deb.debian.org/debian unstable/main amd64 libpython3.12t64 amd64 3.12.7-3 [2153 kB] Get: 140 http://deb.debian.org/debian unstable/main amd64 zlib1g-dev amd64 1:1.3.dfsg+really1.3.1-1+b1 [920 kB] Get: 141 http://deb.debian.org/debian unstable/main amd64 libpython3.12-dev amd64 3.12.7-3 [5124 kB] Get: 142 http://deb.debian.org/debian unstable/main amd64 libpython3-dev amd64 3.12.7-1 [9976 B] Get: 143 http://deb.debian.org/debian unstable/main amd64 libpython3.13-stdlib amd64 3.13.0-2 [1992 kB] Get: 144 http://deb.debian.org/debian unstable/main amd64 libpython3.13 amd64 3.13.0-2 [2137 kB] Get: 145 http://deb.debian.org/debian unstable/main amd64 libpython3.13-dev amd64 3.13.0-2 [4994 kB] Get: 146 http://deb.debian.org/debian unstable/main amd64 libpython3-all-dev amd64 3.12.7-1 [1072 B] Get: 147 http://deb.debian.org/debian unstable/main amd64 libsimde-dev all 0.8.2-1 [465 kB] Get: 148 http://deb.debian.org/debian unstable/main amd64 python3.13 amd64 3.13.0-2 [730 kB] Get: 149 http://deb.debian.org/debian unstable/main amd64 python3-all amd64 3.12.7-1 [1052 B] Get: 150 http://deb.debian.org/debian unstable/main amd64 python3.12-dev amd64 3.12.7-3 [505 kB] Get: 151 http://deb.debian.org/debian unstable/main amd64 python3-dev amd64 3.12.7-1 [26.1 kB] Get: 152 http://deb.debian.org/debian unstable/main amd64 python3.13-dev amd64 3.13.0-2 [504 kB] Get: 153 http://deb.debian.org/debian unstable/main amd64 python3-all-dev amd64 3.12.7-1 [1076 B] Get: 154 http://deb.debian.org/debian unstable/main amd64 python3-wheel all 0.45.0-1 [56.7 kB] Fetched 75.2 MB in 2s (39.9 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libpython3.12-minimal: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 ... 19966 files and directories currently installed.) Preparing to unpack .../libpython3.12-minimal_3.12.7-3_amd64.deb ... Unpacking libpython3.12-minimal:amd64 (3.12.7-3) ... Selecting previously unselected package libexpat1:amd64. Preparing to unpack .../libexpat1_2.6.4-1_amd64.deb ... Unpacking libexpat1:amd64 (2.6.4-1) ... Selecting previously unselected package python3.12-minimal. Preparing to unpack .../python3.12-minimal_3.12.7-3_amd64.deb ... Unpacking python3.12-minimal (3.12.7-3) ... Setting up libpython3.12-minimal:amd64 (3.12.7-3) ... Setting up libexpat1:amd64 (2.6.4-1) ... Setting up python3.12-minimal (3.12.7-3) ... Selecting previously unselected package python3-minimal. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 20286 files and directories currently installed.) Preparing to unpack .../00-python3-minimal_3.12.7-1_amd64.deb ... Unpacking python3-minimal (3.12.7-1) ... Selecting previously unselected package media-types. Preparing to unpack .../01-media-types_10.1.0_all.deb ... Unpacking media-types (10.1.0) ... Selecting previously unselected package netbase. Preparing to unpack .../02-netbase_6.4_all.deb ... Unpacking netbase (6.4) ... Selecting previously unselected package tzdata. Preparing to unpack .../03-tzdata_2024b-3_all.deb ... Unpacking tzdata (2024b-3) ... Selecting previously unselected package libkrb5support0:amd64. Preparing to unpack .../04-libkrb5support0_1.21.3-3_amd64.deb ... Unpacking libkrb5support0:amd64 (1.21.3-3) ... Selecting previously unselected package libcom-err2:amd64. Preparing to unpack .../05-libcom-err2_1.47.1-1+b1_amd64.deb ... Unpacking libcom-err2:amd64 (1.47.1-1+b1) ... Selecting previously unselected package libk5crypto3:amd64. Preparing to unpack .../06-libk5crypto3_1.21.3-3_amd64.deb ... Unpacking libk5crypto3:amd64 (1.21.3-3) ... Selecting previously unselected package libkeyutils1:amd64. Preparing to unpack .../07-libkeyutils1_1.6.3-4_amd64.deb ... Unpacking libkeyutils1:amd64 (1.6.3-4) ... Selecting previously unselected package libkrb5-3:amd64. Preparing to unpack .../08-libkrb5-3_1.21.3-3_amd64.deb ... Unpacking libkrb5-3:amd64 (1.21.3-3) ... Selecting previously unselected package libgssapi-krb5-2:amd64. Preparing to unpack .../09-libgssapi-krb5-2_1.21.3-3_amd64.deb ... Unpacking libgssapi-krb5-2:amd64 (1.21.3-3) ... Selecting previously unselected package libtirpc-common. Preparing to unpack .../10-libtirpc-common_1.3.4+ds-1.3_all.deb ... Unpacking libtirpc-common (1.3.4+ds-1.3) ... Selecting previously unselected package libtirpc3t64:amd64. Preparing to unpack .../11-libtirpc3t64_1.3.4+ds-1.3+b1_amd64.deb ... Adding 'diversion of /lib/x86_64-linux-gnu/libtirpc.so.3 to /lib/x86_64-linux-gnu/libtirpc.so.3.usr-is-merged by libtirpc3t64' Adding 'diversion of /lib/x86_64-linux-gnu/libtirpc.so.3.0.0 to /lib/x86_64-linux-gnu/libtirpc.so.3.0.0.usr-is-merged by libtirpc3t64' Unpacking libtirpc3t64:amd64 (1.3.4+ds-1.3+b1) ... Selecting previously unselected package libnsl2:amd64. Preparing to unpack .../12-libnsl2_1.3.0-3+b3_amd64.deb ... Unpacking libnsl2:amd64 (1.3.0-3+b3) ... Selecting previously unselected package readline-common. Preparing to unpack .../13-readline-common_8.2-5_all.deb ... Unpacking readline-common (8.2-5) ... Selecting previously unselected package libreadline8t64:amd64. Preparing to unpack .../14-libreadline8t64_8.2-5_amd64.deb ... 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 (8.2-5) ... Selecting previously unselected package libpython3.12-stdlib:amd64. Preparing to unpack .../15-libpython3.12-stdlib_3.12.7-3_amd64.deb ... Unpacking libpython3.12-stdlib:amd64 (3.12.7-3) ... Selecting previously unselected package python3.12. Preparing to unpack .../16-python3.12_3.12.7-3_amd64.deb ... Unpacking python3.12 (3.12.7-3) ... Selecting previously unselected package libpython3-stdlib:amd64. Preparing to unpack .../17-libpython3-stdlib_3.12.7-1_amd64.deb ... Unpacking libpython3-stdlib:amd64 (3.12.7-1) ... Setting up python3-minimal (3.12.7-1) ... Selecting previously unselected package python3. (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 ... 21348 files and directories currently installed.) Preparing to unpack .../000-python3_3.12.7-1_amd64.deb ... Unpacking python3 (3.12.7-1) ... Selecting previously unselected package libpython3.13-minimal:amd64. Preparing to unpack .../001-libpython3.13-minimal_3.13.0-2_amd64.deb ... Unpacking libpython3.13-minimal:amd64 (3.13.0-2) ... Selecting previously unselected package python3.13-minimal. Preparing to unpack .../002-python3.13-minimal_3.13.0-2_amd64.deb ... Unpacking python3.13-minimal (3.13.0-2) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../003-sensible-utils_0.0.24_all.deb ... Unpacking sensible-utils (0.0.24) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../004-libmagic-mgc_1%3a5.45-3+b1_amd64.deb ... Unpacking libmagic-mgc (1:5.45-3+b1) ... Selecting previously unselected package libmagic1t64:amd64. Preparing to unpack .../005-libmagic1t64_1%3a5.45-3+b1_amd64.deb ... Unpacking libmagic1t64:amd64 (1:5.45-3+b1) ... Selecting previously unselected package file. Preparing to unpack .../006-file_1%3a5.45-3+b1_amd64.deb ... Unpacking file (1:5.45-3+b1) ... Selecting previously unselected package gettext-base. Preparing to unpack .../007-gettext-base_0.22.5-2_amd64.deb ... Unpacking gettext-base (0.22.5-2) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../008-libuchardet0_0.0.8-1+b2_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.8-1+b2) ... Selecting previously unselected package groff-base. Preparing to unpack .../009-groff-base_1.23.0-5_amd64.deb ... Unpacking groff-base (1.23.0-5) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../010-bsdextrautils_2.40.2-11_amd64.deb ... Unpacking bsdextrautils (2.40.2-11) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../011-libpipeline1_1.5.8-1_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.8-1) ... Selecting previously unselected package man-db. Preparing to unpack .../012-man-db_2.13.0-1_amd64.deb ... Unpacking man-db (2.13.0-1) ... Selecting previously unselected package m4. Preparing to unpack .../013-m4_1.4.19-4_amd64.deb ... 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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/abpoa-1.5.3/ && 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 > ../abpoa_1.5.3-1_source.changes dpkg-buildpackage: info: source package abpoa dpkg-buildpackage: info: source version 1.5.3-1 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 --with=python3 --buildsystem=pybuild debian/rules execute_before_dh_testdir make[1]: Entering directory '/build/reproducible-path/abpoa-1.5.3' # Guard against outdated maintainer manual page. # Hint: help2man does mostly the right thing except for stderr # capture, multiple commands support, and commands description. grep -q 1.5.3 debian/manuals/abpoa.1 make[1]: Leaving directory '/build/reproducible-path/abpoa-1.5.3' dh_auto_clean -O--buildsystem=pybuild I: pybuild base:311: python3.13 setup.py clean /usr/lib/python3/dist-packages/setuptools/__init__.py:94: _DeprecatedInstaller: setuptools.installer and fetch_build_eggs are deprecated. !! ******************************************************************************** Requirements should be satisfied by a PEP 517 installer. If you are using pip, you can try `pip install --use-pep517`. ******************************************************************************** !! dist.fetch_build_eggs(dist.setup_requires) running clean removing '/build/reproducible-path/abpoa-1.5.3/.pybuild/cpython3_3.13_pyabpoa/build' (and everything under it) 'build/bdist.linux-x86_64' does not exist -- can't clean it 'build/scripts-3.13' does not exist -- can't clean it I: pybuild base:311: python3.12 setup.py clean /usr/lib/python3/dist-packages/setuptools/__init__.py:94: _DeprecatedInstaller: setuptools.installer and fetch_build_eggs are deprecated. !! ******************************************************************************** Requirements should be satisfied by a PEP 517 installer. If you are using pip, you can try `pip install --use-pep517`. ******************************************************************************** !! dist.fetch_build_eggs(dist.setup_requires) running clean removing '/build/reproducible-path/abpoa-1.5.3/.pybuild/cpython3_3.12_pyabpoa/build' (and everything under it) 'build/bdist.linux-x86_64' does not exist -- can't clean it 'build/scripts-3.12' does not exist -- can't clean it dh_autoreconf_clean -O--buildsystem=pybuild dh_clean -O--buildsystem=pybuild debian/rules binary dh binary --with=python3 --buildsystem=pybuild debian/rules execute_before_dh_testdir make[1]: Entering directory '/build/reproducible-path/abpoa-1.5.3' # Guard against outdated maintainer manual page. # Hint: help2man does mostly the right thing except for stderr # capture, multiple commands support, and commands description. grep -q 1.5.3 debian/manuals/abpoa.1 make[1]: Leaving directory '/build/reproducible-path/abpoa-1.5.3' dh_update_autotools_config -O--buildsystem=pybuild dh_autoreconf -O--buildsystem=pybuild dh_auto_configure -O--buildsystem=pybuild I: pybuild base:311: python3.13 setup.py config /usr/lib/python3/dist-packages/setuptools/__init__.py:94: _DeprecatedInstaller: setuptools.installer and fetch_build_eggs are deprecated. !! ******************************************************************************** Requirements should be satisfied by a PEP 517 installer. If you are using pip, you can try `pip install --use-pep517`. ******************************************************************************** !! dist.fetch_build_eggs(dist.setup_requires) running config I: pybuild base:311: python3.12 setup.py config /usr/lib/python3/dist-packages/setuptools/__init__.py:94: _DeprecatedInstaller: setuptools.installer and fetch_build_eggs are deprecated. !! ******************************************************************************** Requirements should be satisfied by a PEP 517 installer. If you are using pip, you can try `pip install --use-pep517`. ******************************************************************************** !! dist.fetch_build_eggs(dist.setup_requires) running config dh_auto_build -O--buildsystem=pybuild I: pybuild base:311: /usr/bin/python3.13 setup.py build /usr/lib/python3/dist-packages/setuptools/__init__.py:94: _DeprecatedInstaller: setuptools.installer and fetch_build_eggs are deprecated. !! ******************************************************************************** Requirements should be satisfied by a PEP 517 installer. If you are using pip, you can try `pip install --use-pep517`. ******************************************************************************** !! dist.fetch_build_eggs(dist.setup_requires) running build running build_ext /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/abpoa-1.5.3/python/pyabpoa.pyx tree = Parsing.p_module(s, pxd, full_module_name) Compiling python/pyabpoa.pyx because it changed. [1/1] Cythonizing python/pyabpoa.pyx building 'pyabpoa' extension creating build/temp.linux-x86_64-cpython-313/python creating build/temp.linux-x86_64-cpython-313/src x86_64-linux-gnu-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -fPIC -Iinclude/ -I/usr/include/python3.13 -c python/pyabpoa.c -o build/temp.linux-x86_64-cpython-313/python/pyabpoa.o -O3 -Wno-misleading-indentation -Wno-error=declaration-after-statement -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES In file included from python/pyabpoa.c:1285: include/simd_instruction.h:614:14: warning: ‘SIMDMalloc’ defined but not used [-Wunused-function] 614 | static void *SIMDMalloc(size_t size, size_t align) { | ^~~~~~~~~~ x86_64-linux-gnu-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -fPIC -Iinclude/ -I/usr/include/python3.13 -c src/abpoa_align.c -o build/temp.linux-x86_64-cpython-313/src/abpoa_align.o -O3 -Wno-misleading-indentation -Wno-error=declaration-after-statement -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES In file included from src/abpoa_seq.h:5, from src/abpoa_align.c:7: src/kseq.h:217:16: warning: ‘kseq_copy’ defined but not used [-Wunused-function] 217 | SCOPE void kseq_copy(kseq_t *seq, kseq_t kseq)\ | ^~~~~~~~~ src/kseq.h:235:9: note: in expansion of macro ‘__KSEQ_COPY’ 235 | __KSEQ_COPY(SCOPE) | ^~~~~~~~~~~ src/kseq.h:237:35: note: in expansion of macro ‘KSEQ_INIT2’ 237 | #define KSEQ_INIT(type_t, __read) KSEQ_INIT2(static, type_t, __read) | ^~~~~~~~~~ src/abpoa_seq.h:7:1: note: in expansion of macro ‘KSEQ_INIT’ 7 | KSEQ_INIT(gzFile, gzread) | ^~~~~~~~~ src/kseq.h:176:19: warning: ‘kseq_read’ defined but not used [-Wunused-function] 176 | SCOPE int kseq_read(kseq_t *seq) \ | ^~~~~~~~~ src/kseq.h:234:9: note: in expansion of macro ‘__KSEQ_READ’ 234 | __KSEQ_READ(SCOPE) \ | ^~~~~~~~~~~ src/kseq.h:237:35: note: in expansion of macro ‘KSEQ_INIT2’ 237 | #define KSEQ_INIT(type_t, __read) KSEQ_INIT2(static, type_t, __read) | ^~~~~~~~~~ src/abpoa_seq.h:7:1: note: in expansion of macro ‘KSEQ_INIT’ 7 | KSEQ_INIT(gzFile, gzread) | ^~~~~~~~~ In file included from src/abpoa.h:5, from src/abpoa_align.c:4: src/simd_instruction.h:614:14: warning: ‘SIMDMalloc’ defined but not used [-Wunused-function] 614 | static void *SIMDMalloc(size_t size, size_t align) { | ^~~~~~~~~~ x86_64-linux-gnu-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -fPIC -Iinclude/ -I/usr/include/python3.13 -c src/abpoa_graph.c -o build/temp.linux-x86_64-cpython-313/src/abpoa_graph.o -O3 -Wno-misleading-indentation -Wno-error=declaration-after-statement -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES In file included from src/abpoa_seq.h:5, from src/abpoa_graph.c:5: src/kseq.h:217:16: warning: ‘kseq_copy’ defined but not used [-Wunused-function] 217 | SCOPE void kseq_copy(kseq_t *seq, kseq_t kseq)\ | ^~~~~~~~~ src/kseq.h:235:9: note: in expansion of macro ‘__KSEQ_COPY’ 235 | __KSEQ_COPY(SCOPE) | ^~~~~~~~~~~ src/kseq.h:237:35: note: in expansion of macro ‘KSEQ_INIT2’ 237 | #define KSEQ_INIT(type_t, __read) KSEQ_INIT2(static, type_t, __read) | ^~~~~~~~~~ src/abpoa_seq.h:7:1: note: in expansion of macro ‘KSEQ_INIT’ 7 | KSEQ_INIT(gzFile, gzread) | ^~~~~~~~~ src/kseq.h:176:19: warning: ‘kseq_read’ defined but not used [-Wunused-function] 176 | SCOPE int kseq_read(kseq_t *seq) \ | ^~~~~~~~~ src/kseq.h:234:9: note: in expansion of macro ‘__KSEQ_READ’ 234 | __KSEQ_READ(SCOPE) \ | ^~~~~~~~~~~ src/kseq.h:237:35: note: in expansion of macro ‘KSEQ_INIT2’ 237 | #define KSEQ_INIT(type_t, __read) KSEQ_INIT2(static, type_t, __read) | ^~~~~~~~~~ src/abpoa_seq.h:7:1: note: in expansion of macro ‘KSEQ_INIT’ 7 | KSEQ_INIT(gzFile, gzread) | ^~~~~~~~~ src/kseq.h:162:20: warning: ‘kseq_destroy’ defined but not used [-Wunused-function] 162 | SCOPE void kseq_destroy(kseq_t *ks) \ | ^~~~~~~~~~~~ src/kseq.h:233:9: note: in expansion of macro ‘__KSEQ_BASIC’ 233 | __KSEQ_BASIC(SCOPE, type_t) \ | ^~~~~~~~~~~~ src/kseq.h:237:35: note: in expansion of macro ‘KSEQ_INIT2’ 237 | #define KSEQ_INIT(type_t, __read) KSEQ_INIT2(static, type_t, __read) | ^~~~~~~~~~ src/abpoa_seq.h:7:1: note: in expansion of macro ‘KSEQ_INIT’ 7 | KSEQ_INIT(gzFile, gzread) | ^~~~~~~~~ src/kseq.h:156:23: warning: ‘kseq_init’ defined but not used [-Wunused-function] 156 | SCOPE kseq_t *kseq_init(type_t fd) \ | ^~~~~~~~~ src/kseq.h:233:9: note: in expansion of macro ‘__KSEQ_BASIC’ 233 | __KSEQ_BASIC(SCOPE, type_t) \ | ^~~~~~~~~~~~ src/kseq.h:237:35: note: in expansion of macro ‘KSEQ_INIT2’ 237 | #define KSEQ_INIT(type_t, __read) KSEQ_INIT2(static, type_t, __read) | ^~~~~~~~~~ src/abpoa_seq.h:7:1: note: in expansion of macro ‘KSEQ_INIT’ 7 | KSEQ_INIT(gzFile, gzread) | ^~~~~~~~~ In file included from src/abpoa.h:5, from src/abpoa_align.h:4, from src/abpoa_graph.c:4: src/simd_instruction.h:614:14: warning: ‘SIMDMalloc’ defined but not used [-Wunused-function] 614 | static void *SIMDMalloc(size_t size, size_t align) { | ^~~~~~~~~~ x86_64-linux-gnu-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -fPIC -Iinclude/ -I/usr/include/python3.13 -c src/abpoa_output.c -o build/temp.linux-x86_64-cpython-313/src/abpoa_output.o -O3 -Wno-misleading-indentation -Wno-error=declaration-after-statement -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES In file included from src/abpoa_seq.h:5, from src/abpoa_output.c:7: src/kseq.h:217:16: warning: ‘kseq_copy’ defined but not used [-Wunused-function] 217 | SCOPE void kseq_copy(kseq_t *seq, kseq_t kseq)\ | ^~~~~~~~~ src/kseq.h:235:9: note: in expansion of macro ‘__KSEQ_COPY’ 235 | __KSEQ_COPY(SCOPE) | ^~~~~~~~~~~ src/kseq.h:237:35: note: in expansion of macro ‘KSEQ_INIT2’ 237 | #define KSEQ_INIT(type_t, __read) KSEQ_INIT2(static, type_t, __read) | ^~~~~~~~~~ src/abpoa_seq.h:7:1: note: in expansion of macro ‘KSEQ_INIT’ 7 | KSEQ_INIT(gzFile, gzread) | ^~~~~~~~~ src/kseq.h:176:19: warning: ‘kseq_read’ defined but not used [-Wunused-function] 176 | SCOPE int kseq_read(kseq_t *seq) \ | ^~~~~~~~~ src/kseq.h:234:9: note: in expansion of macro ‘__KSEQ_READ’ 234 | __KSEQ_READ(SCOPE) \ | ^~~~~~~~~~~ src/kseq.h:237:35: note: in expansion of macro ‘KSEQ_INIT2’ 237 | #define KSEQ_INIT(type_t, __read) KSEQ_INIT2(static, type_t, __read) | ^~~~~~~~~~ src/abpoa_seq.h:7:1: note: in expansion of macro ‘KSEQ_INIT’ 7 | KSEQ_INIT(gzFile, gzread) | ^~~~~~~~~ src/kseq.h:162:20: warning: ‘kseq_destroy’ defined but not used [-Wunused-function] 162 | SCOPE void kseq_destroy(kseq_t *ks) \ | ^~~~~~~~~~~~ src/kseq.h:233:9: note: in expansion of macro ‘__KSEQ_BASIC’ 233 | __KSEQ_BASIC(SCOPE, type_t) \ | ^~~~~~~~~~~~ src/kseq.h:237:35: note: in expansion of macro ‘KSEQ_INIT2’ 237 | #define KSEQ_INIT(type_t, __read) KSEQ_INIT2(static, type_t, __read) | ^~~~~~~~~~ src/abpoa_seq.h:7:1: note: in expansion of macro ‘KSEQ_INIT’ 7 | KSEQ_INIT(gzFile, gzread) | ^~~~~~~~~ src/kseq.h:156:23: warning: ‘kseq_init’ defined but not used [-Wunused-function] 156 | SCOPE kseq_t *kseq_init(type_t fd) \ | ^~~~~~~~~ src/kseq.h:233:9: note: in expansion of macro ‘__KSEQ_BASIC’ 233 | __KSEQ_BASIC(SCOPE, type_t) \ | ^~~~~~~~~~~~ src/kseq.h:237:35: note: in expansion of macro ‘KSEQ_INIT2’ 237 | #define KSEQ_INIT(type_t, __read) KSEQ_INIT2(static, type_t, __read) | ^~~~~~~~~~ src/abpoa_seq.h:7:1: note: in expansion of macro ‘KSEQ_INIT’ 7 | KSEQ_INIT(gzFile, gzread) | ^~~~~~~~~ In file included from src/abpoa.h:5, from src/abpoa_output.c:4: src/simd_instruction.h:614:14: warning: ‘SIMDMalloc’ defined but not used [-Wunused-function] 614 | static void *SIMDMalloc(size_t size, size_t align) { | ^~~~~~~~~~ x86_64-linux-gnu-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -fPIC -Iinclude/ -I/usr/include/python3.13 -c src/abpoa_plot.c -o build/temp.linux-x86_64-cpython-313/src/abpoa_plot.o -O3 -Wno-misleading-indentation -Wno-error=declaration-after-statement -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES In file included from src/abpoa.h:5, from src/abpoa_plot.c:3: src/simd_instruction.h:614:14: warning: ‘SIMDMalloc’ defined but not used [-Wunused-function] 614 | static void *SIMDMalloc(size_t size, size_t align) { | ^~~~~~~~~~ x86_64-linux-gnu-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -fPIC -Iinclude/ -I/usr/include/python3.13 -c src/abpoa_seed.c -o build/temp.linux-x86_64-cpython-313/src/abpoa_seed.o -O3 -Wno-misleading-indentation -Wno-error=declaration-after-statement -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES src/abpoa_seed.c: In function ‘abpoa_dp_chaining_of_local_chains’: src/abpoa_seed.c:458:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 458 | for (i = _n; i < par_anchors->n; ++i) { | ^ In file included from src/abpoa.h:5, from src/abpoa_seed.c:5: src/simd_instruction.h: At top level: src/simd_instruction.h:614:14: warning: ‘SIMDMalloc’ defined but not used [-Wunused-function] 614 | static void *SIMDMalloc(size_t size, size_t align) { | ^~~~~~~~~~ x86_64-linux-gnu-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -fPIC -Iinclude/ -I/usr/include/python3.13 -c src/abpoa_seq.c -o build/temp.linux-x86_64-cpython-313/src/abpoa_seq.o -O3 -Wno-misleading-indentation -Wno-error=declaration-after-statement -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES In file included from src/abpoa_seq.h:5, from src/abpoa_seq.c:4: src/kseq.h:217:16: warning: ‘kseq_copy’ defined but not used [-Wunused-function] 217 | SCOPE void kseq_copy(kseq_t *seq, kseq_t kseq)\ | ^~~~~~~~~ src/kseq.h:235:9: note: in expansion of macro ‘__KSEQ_COPY’ 235 | __KSEQ_COPY(SCOPE) | ^~~~~~~~~~~ src/kseq.h:237:35: note: in expansion of macro ‘KSEQ_INIT2’ 237 | #define KSEQ_INIT(type_t, __read) KSEQ_INIT2(static, type_t, __read) | ^~~~~~~~~~ src/abpoa_seq.h:7:1: note: in expansion of macro ‘KSEQ_INIT’ 7 | KSEQ_INIT(gzFile, gzread) | ^~~~~~~~~ src/kseq.h:162:20: warning: ‘kseq_destroy’ defined but not used [-Wunused-function] 162 | SCOPE void kseq_destroy(kseq_t *ks) \ | ^~~~~~~~~~~~ src/kseq.h:233:9: note: in expansion of macro ‘__KSEQ_BASIC’ 233 | __KSEQ_BASIC(SCOPE, type_t) \ | ^~~~~~~~~~~~ src/kseq.h:237:35: note: in expansion of macro ‘KSEQ_INIT2’ 237 | #define KSEQ_INIT(type_t, __read) KSEQ_INIT2(static, type_t, __read) | ^~~~~~~~~~ src/abpoa_seq.h:7:1: note: in expansion of macro ‘KSEQ_INIT’ 7 | KSEQ_INIT(gzFile, gzread) | ^~~~~~~~~ src/kseq.h:156:23: warning: ‘kseq_init’ defined but not used [-Wunused-function] 156 | SCOPE kseq_t *kseq_init(type_t fd) \ | ^~~~~~~~~ src/kseq.h:233:9: note: in expansion of macro ‘__KSEQ_BASIC’ 233 | __KSEQ_BASIC(SCOPE, type_t) \ | ^~~~~~~~~~~~ src/kseq.h:237:35: note: in expansion of macro ‘KSEQ_INIT2’ 237 | #define KSEQ_INIT(type_t, __read) KSEQ_INIT2(static, type_t, __read) | ^~~~~~~~~~ src/abpoa_seq.h:7:1: note: in expansion of macro ‘KSEQ_INIT’ 7 | KSEQ_INIT(gzFile, gzread) | ^~~~~~~~~ In file included from src/abpoa.h:5, from src/abpoa_seq.h:4: src/simd_instruction.h:614:14: warning: ‘SIMDMalloc’ defined but not used [-Wunused-function] 614 | static void *SIMDMalloc(size_t size, size_t align) { | ^~~~~~~~~~ x86_64-linux-gnu-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -fPIC -Iinclude/ -I/usr/include/python3.13 -c src/kalloc.c -o build/temp.linux-x86_64-cpython-313/src/kalloc.o -O3 -Wno-misleading-indentation -Wno-error=declaration-after-statement -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES x86_64-linux-gnu-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -fPIC -Iinclude/ -I/usr/include/python3.13 -c src/kstring.c -o build/temp.linux-x86_64-cpython-313/src/kstring.o -O3 -Wno-misleading-indentation -Wno-error=declaration-after-statement -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES src/kstring.c: In function ‘kvsprintf’: src/kstring.c:15:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 15 | if (l + 1 > s->m - s->l) { | ^ x86_64-linux-gnu-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -fPIC -Iinclude/ -I/usr/include/python3.13 -c src/simd_abpoa_align.c -o build/temp.linux-x86_64-cpython-313/src/simd_abpoa_align.o -O3 -Wno-misleading-indentation -Wno-error=declaration-after-statement -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES x86_64-linux-gnu-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -fPIC -Iinclude/ -I/usr/include/python3.13 -c src/simd_check.c -o build/temp.linux-x86_64-cpython-313/src/simd_check.o -O3 -Wno-misleading-indentation -Wno-error=declaration-after-statement -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES In file included from src/simd_check.c:1: src/simd_instruction.h:614:14: warning: ‘SIMDMalloc’ defined but not used [-Wunused-function] 614 | static void *SIMDMalloc(size_t size, size_t align) { | ^~~~~~~~~~ x86_64-linux-gnu-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -fPIC -Iinclude/ -I/usr/include/python3.13 -c src/utils.c -o build/temp.linux-x86_64-cpython-313/src/utils.o -O3 -Wno-misleading-indentation -Wno-error=declaration-after-statement -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES x86_64-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES build/temp.linux-x86_64-cpython-313/python/pyabpoa.o build/temp.linux-x86_64-cpython-313/src/abpoa_align.o build/temp.linux-x86_64-cpython-313/src/abpoa_graph.o build/temp.linux-x86_64-cpython-313/src/abpoa_output.o build/temp.linux-x86_64-cpython-313/src/abpoa_plot.o build/temp.linux-x86_64-cpython-313/src/abpoa_seed.o build/temp.linux-x86_64-cpython-313/src/abpoa_seq.o build/temp.linux-x86_64-cpython-313/src/kalloc.o build/temp.linux-x86_64-cpython-313/src/kstring.o build/temp.linux-x86_64-cpython-313/src/simd_abpoa_align.o build/temp.linux-x86_64-cpython-313/src/simd_check.o build/temp.linux-x86_64-cpython-313/src/utils.o -L/usr/lib/x86_64-linux-gnu -lz -lm -lpthread -o /build/reproducible-path/abpoa-1.5.3/.pybuild/cpython3_3.13_pyabpoa/build/pyabpoa.cpython-313-x86_64-linux-gnu.so I: pybuild base:311: /usr/bin/python3 setup.py build /usr/lib/python3/dist-packages/setuptools/__init__.py:94: _DeprecatedInstaller: setuptools.installer and fetch_build_eggs are deprecated. !! ******************************************************************************** Requirements should be satisfied by a PEP 517 installer. If you are using pip, you can try `pip install --use-pep517`. ******************************************************************************** !! dist.fetch_build_eggs(dist.setup_requires) running build running build_ext building 'pyabpoa' extension creating build/temp.linux-x86_64-cpython-312/python creating build/temp.linux-x86_64-cpython-312/src x86_64-linux-gnu-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -fPIC -Iinclude/ -I/usr/include/python3.12 -c python/pyabpoa.c -o build/temp.linux-x86_64-cpython-312/python/pyabpoa.o -O3 -Wno-misleading-indentation -Wno-error=declaration-after-statement -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES In file included from python/pyabpoa.c:1285: include/simd_instruction.h:614:14: warning: ‘SIMDMalloc’ defined but not used [-Wunused-function] 614 | static void *SIMDMalloc(size_t size, size_t align) { | ^~~~~~~~~~ x86_64-linux-gnu-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -fPIC -Iinclude/ -I/usr/include/python3.12 -c src/abpoa_align.c -o build/temp.linux-x86_64-cpython-312/src/abpoa_align.o -O3 -Wno-misleading-indentation -Wno-error=declaration-after-statement -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES In file included from src/abpoa_seq.h:5, from src/abpoa_align.c:7: src/kseq.h:217:16: warning: ‘kseq_copy’ defined but not used [-Wunused-function] 217 | SCOPE void kseq_copy(kseq_t *seq, kseq_t kseq)\ | ^~~~~~~~~ src/kseq.h:235:9: note: in expansion of macro ‘__KSEQ_COPY’ 235 | __KSEQ_COPY(SCOPE) | ^~~~~~~~~~~ src/kseq.h:237:35: note: in expansion of macro ‘KSEQ_INIT2’ 237 | #define KSEQ_INIT(type_t, __read) KSEQ_INIT2(static, type_t, __read) | ^~~~~~~~~~ src/abpoa_seq.h:7:1: note: in expansion of macro ‘KSEQ_INIT’ 7 | KSEQ_INIT(gzFile, gzread) | ^~~~~~~~~ src/kseq.h:176:19: warning: ‘kseq_read’ defined but not used [-Wunused-function] 176 | SCOPE int kseq_read(kseq_t *seq) \ | ^~~~~~~~~ src/kseq.h:234:9: note: in expansion of macro ‘__KSEQ_READ’ 234 | __KSEQ_READ(SCOPE) \ | ^~~~~~~~~~~ src/kseq.h:237:35: note: in expansion of macro ‘KSEQ_INIT2’ 237 | #define KSEQ_INIT(type_t, __read) KSEQ_INIT2(static, type_t, __read) | ^~~~~~~~~~ src/abpoa_seq.h:7:1: note: in expansion of macro ‘KSEQ_INIT’ 7 | KSEQ_INIT(gzFile, gzread) | ^~~~~~~~~ In file included from src/abpoa.h:5, from src/abpoa_align.c:4: src/simd_instruction.h:614:14: warning: ‘SIMDMalloc’ defined but not used [-Wunused-function] 614 | static void *SIMDMalloc(size_t size, size_t align) { | ^~~~~~~~~~ x86_64-linux-gnu-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -fPIC -Iinclude/ -I/usr/include/python3.12 -c src/abpoa_graph.c -o build/temp.linux-x86_64-cpython-312/src/abpoa_graph.o -O3 -Wno-misleading-indentation -Wno-error=declaration-after-statement -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES In file included from src/abpoa_seq.h:5, from src/abpoa_graph.c:5: src/kseq.h:217:16: warning: ‘kseq_copy’ defined but not used [-Wunused-function] 217 | SCOPE void kseq_copy(kseq_t *seq, kseq_t kseq)\ | ^~~~~~~~~ src/kseq.h:235:9: note: in expansion of macro ‘__KSEQ_COPY’ 235 | __KSEQ_COPY(SCOPE) | ^~~~~~~~~~~ src/kseq.h:237:35: note: in expansion of macro ‘KSEQ_INIT2’ 237 | #define KSEQ_INIT(type_t, __read) KSEQ_INIT2(static, type_t, __read) | ^~~~~~~~~~ src/abpoa_seq.h:7:1: note: in expansion of macro ‘KSEQ_INIT’ 7 | KSEQ_INIT(gzFile, gzread) | ^~~~~~~~~ src/kseq.h:176:19: warning: ‘kseq_read’ defined but not used [-Wunused-function] 176 | SCOPE int kseq_read(kseq_t *seq) \ | ^~~~~~~~~ src/kseq.h:234:9: note: in expansion of macro ‘__KSEQ_READ’ 234 | __KSEQ_READ(SCOPE) \ | ^~~~~~~~~~~ src/kseq.h:237:35: note: in expansion of macro ‘KSEQ_INIT2’ 237 | #define KSEQ_INIT(type_t, __read) KSEQ_INIT2(static, type_t, __read) | ^~~~~~~~~~ src/abpoa_seq.h:7:1: note: in expansion of macro ‘KSEQ_INIT’ 7 | KSEQ_INIT(gzFile, gzread) | ^~~~~~~~~ src/kseq.h:162:20: warning: ‘kseq_destroy’ defined but not used [-Wunused-function] 162 | SCOPE void kseq_destroy(kseq_t *ks) \ | ^~~~~~~~~~~~ src/kseq.h:233:9: note: in expansion of macro ‘__KSEQ_BASIC’ 233 | __KSEQ_BASIC(SCOPE, type_t) \ | ^~~~~~~~~~~~ src/kseq.h:237:35: note: in expansion of macro ‘KSEQ_INIT2’ 237 | #define KSEQ_INIT(type_t, __read) KSEQ_INIT2(static, type_t, __read) | ^~~~~~~~~~ src/abpoa_seq.h:7:1: note: in expansion of macro ‘KSEQ_INIT’ 7 | KSEQ_INIT(gzFile, gzread) | ^~~~~~~~~ src/kseq.h:156:23: warning: ‘kseq_init’ defined but not used [-Wunused-function] 156 | SCOPE kseq_t *kseq_init(type_t fd) \ | ^~~~~~~~~ src/kseq.h:233:9: note: in expansion of macro ‘__KSEQ_BASIC’ 233 | __KSEQ_BASIC(SCOPE, type_t) \ | ^~~~~~~~~~~~ src/kseq.h:237:35: note: in expansion of macro ‘KSEQ_INIT2’ 237 | #define KSEQ_INIT(type_t, __read) KSEQ_INIT2(static, type_t, __read) | ^~~~~~~~~~ src/abpoa_seq.h:7:1: note: in expansion of macro ‘KSEQ_INIT’ 7 | KSEQ_INIT(gzFile, gzread) | ^~~~~~~~~ In file included from src/abpoa.h:5, from src/abpoa_align.h:4, from src/abpoa_graph.c:4: src/simd_instruction.h:614:14: warning: ‘SIMDMalloc’ defined but not used [-Wunused-function] 614 | static void *SIMDMalloc(size_t size, size_t align) { | ^~~~~~~~~~ x86_64-linux-gnu-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -fPIC -Iinclude/ -I/usr/include/python3.12 -c src/abpoa_output.c -o build/temp.linux-x86_64-cpython-312/src/abpoa_output.o -O3 -Wno-misleading-indentation -Wno-error=declaration-after-statement -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES In file included from src/abpoa_seq.h:5, from src/abpoa_output.c:7: src/kseq.h:217:16: warning: ‘kseq_copy’ defined but not used [-Wunused-function] 217 | SCOPE void kseq_copy(kseq_t *seq, kseq_t kseq)\ | ^~~~~~~~~ src/kseq.h:235:9: note: in expansion of macro ‘__KSEQ_COPY’ 235 | __KSEQ_COPY(SCOPE) | ^~~~~~~~~~~ src/kseq.h:237:35: note: in expansion of macro ‘KSEQ_INIT2’ 237 | #define KSEQ_INIT(type_t, __read) KSEQ_INIT2(static, type_t, __read) | ^~~~~~~~~~ src/abpoa_seq.h:7:1: note: in expansion of macro ‘KSEQ_INIT’ 7 | KSEQ_INIT(gzFile, gzread) | ^~~~~~~~~ src/kseq.h:176:19: warning: ‘kseq_read’ defined but not used [-Wunused-function] 176 | SCOPE int kseq_read(kseq_t *seq) \ | ^~~~~~~~~ src/kseq.h:234:9: note: in expansion of macro ‘__KSEQ_READ’ 234 | __KSEQ_READ(SCOPE) \ | ^~~~~~~~~~~ src/kseq.h:237:35: note: in expansion of macro ‘KSEQ_INIT2’ 237 | #define KSEQ_INIT(type_t, __read) KSEQ_INIT2(static, type_t, __read) | ^~~~~~~~~~ src/abpoa_seq.h:7:1: note: in expansion of macro ‘KSEQ_INIT’ 7 | KSEQ_INIT(gzFile, gzread) | ^~~~~~~~~ src/kseq.h:162:20: warning: ‘kseq_destroy’ defined but not used [-Wunused-function] 162 | SCOPE void kseq_destroy(kseq_t *ks) \ | ^~~~~~~~~~~~ src/kseq.h:233:9: note: in expansion of macro ‘__KSEQ_BASIC’ 233 | __KSEQ_BASIC(SCOPE, type_t) \ | ^~~~~~~~~~~~ src/kseq.h:237:35: note: in expansion of macro ‘KSEQ_INIT2’ 237 | #define KSEQ_INIT(type_t, __read) KSEQ_INIT2(static, type_t, __read) | ^~~~~~~~~~ src/abpoa_seq.h:7:1: note: in expansion of macro ‘KSEQ_INIT’ 7 | KSEQ_INIT(gzFile, gzread) | ^~~~~~~~~ src/kseq.h:156:23: warning: ‘kseq_init’ defined but not used [-Wunused-function] 156 | SCOPE kseq_t *kseq_init(type_t fd) \ | ^~~~~~~~~ src/kseq.h:233:9: note: in expansion of macro ‘__KSEQ_BASIC’ 233 | __KSEQ_BASIC(SCOPE, type_t) \ | ^~~~~~~~~~~~ src/kseq.h:237:35: note: in expansion of macro ‘KSEQ_INIT2’ 237 | #define KSEQ_INIT(type_t, __read) KSEQ_INIT2(static, type_t, __read) | ^~~~~~~~~~ src/abpoa_seq.h:7:1: note: in expansion of macro ‘KSEQ_INIT’ 7 | KSEQ_INIT(gzFile, gzread) | ^~~~~~~~~ In file included from src/abpoa.h:5, from src/abpoa_output.c:4: src/simd_instruction.h:614:14: warning: ‘SIMDMalloc’ defined but not used [-Wunused-function] 614 | static void *SIMDMalloc(size_t size, size_t align) { | ^~~~~~~~~~ x86_64-linux-gnu-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -fPIC -Iinclude/ -I/usr/include/python3.12 -c src/abpoa_plot.c -o build/temp.linux-x86_64-cpython-312/src/abpoa_plot.o -O3 -Wno-misleading-indentation -Wno-error=declaration-after-statement -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES In file included from src/abpoa.h:5, from src/abpoa_plot.c:3: src/simd_instruction.h:614:14: warning: ‘SIMDMalloc’ defined but not used [-Wunused-function] 614 | static void *SIMDMalloc(size_t size, size_t align) { | ^~~~~~~~~~ x86_64-linux-gnu-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -fPIC -Iinclude/ -I/usr/include/python3.12 -c src/abpoa_seed.c -o build/temp.linux-x86_64-cpython-312/src/abpoa_seed.o -O3 -Wno-misleading-indentation -Wno-error=declaration-after-statement -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES src/abpoa_seed.c: In function ‘abpoa_dp_chaining_of_local_chains’: src/abpoa_seed.c:458:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 458 | for (i = _n; i < par_anchors->n; ++i) { | ^ In file included from src/abpoa.h:5, from src/abpoa_seed.c:5: src/simd_instruction.h: At top level: src/simd_instruction.h:614:14: warning: ‘SIMDMalloc’ defined but not used [-Wunused-function] 614 | static void *SIMDMalloc(size_t size, size_t align) { | ^~~~~~~~~~ x86_64-linux-gnu-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -fPIC -Iinclude/ -I/usr/include/python3.12 -c src/abpoa_seq.c -o build/temp.linux-x86_64-cpython-312/src/abpoa_seq.o -O3 -Wno-misleading-indentation -Wno-error=declaration-after-statement -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES In file included from src/abpoa_seq.h:5, from src/abpoa_seq.c:4: src/kseq.h:217:16: warning: ‘kseq_copy’ defined but not used [-Wunused-function] 217 | SCOPE void kseq_copy(kseq_t *seq, kseq_t kseq)\ | ^~~~~~~~~ src/kseq.h:235:9: note: in expansion of macro ‘__KSEQ_COPY’ 235 | __KSEQ_COPY(SCOPE) | ^~~~~~~~~~~ src/kseq.h:237:35: note: in expansion of macro ‘KSEQ_INIT2’ 237 | #define KSEQ_INIT(type_t, __read) KSEQ_INIT2(static, type_t, __read) | ^~~~~~~~~~ src/abpoa_seq.h:7:1: note: in expansion of macro ‘KSEQ_INIT’ 7 | KSEQ_INIT(gzFile, gzread) | ^~~~~~~~~ src/kseq.h:162:20: warning: ‘kseq_destroy’ defined but not used [-Wunused-function] 162 | SCOPE void kseq_destroy(kseq_t *ks) \ | ^~~~~~~~~~~~ src/kseq.h:233:9: note: in expansion of macro ‘__KSEQ_BASIC’ 233 | __KSEQ_BASIC(SCOPE, type_t) \ | ^~~~~~~~~~~~ src/kseq.h:237:35: note: in expansion of macro ‘KSEQ_INIT2’ 237 | #define KSEQ_INIT(type_t, __read) KSEQ_INIT2(static, type_t, __read) | ^~~~~~~~~~ src/abpoa_seq.h:7:1: note: in expansion of macro ‘KSEQ_INIT’ 7 | KSEQ_INIT(gzFile, gzread) | ^~~~~~~~~ src/kseq.h:156:23: warning: ‘kseq_init’ defined but not used [-Wunused-function] 156 | SCOPE kseq_t *kseq_init(type_t fd) \ | ^~~~~~~~~ src/kseq.h:233:9: note: in expansion of macro ‘__KSEQ_BASIC’ 233 | __KSEQ_BASIC(SCOPE, type_t) \ | ^~~~~~~~~~~~ src/kseq.h:237:35: note: in expansion of macro ‘KSEQ_INIT2’ 237 | #define KSEQ_INIT(type_t, __read) KSEQ_INIT2(static, type_t, __read) | ^~~~~~~~~~ src/abpoa_seq.h:7:1: note: in expansion of macro ‘KSEQ_INIT’ 7 | KSEQ_INIT(gzFile, gzread) | ^~~~~~~~~ In file included from src/abpoa.h:5, from src/abpoa_seq.h:4: src/simd_instruction.h:614:14: warning: ‘SIMDMalloc’ defined but not used [-Wunused-function] 614 | static void *SIMDMalloc(size_t size, size_t align) { | ^~~~~~~~~~ x86_64-linux-gnu-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -fPIC -Iinclude/ -I/usr/include/python3.12 -c src/kalloc.c -o build/temp.linux-x86_64-cpython-312/src/kalloc.o -O3 -Wno-misleading-indentation -Wno-error=declaration-after-statement -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES x86_64-linux-gnu-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -fPIC -Iinclude/ -I/usr/include/python3.12 -c src/kstring.c -o build/temp.linux-x86_64-cpython-312/src/kstring.o -O3 -Wno-misleading-indentation -Wno-error=declaration-after-statement -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES src/kstring.c: In function ‘kvsprintf’: src/kstring.c:15:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 15 | if (l + 1 > s->m - s->l) { | ^ x86_64-linux-gnu-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -fPIC -Iinclude/ -I/usr/include/python3.12 -c src/simd_abpoa_align.c -o build/temp.linux-x86_64-cpython-312/src/simd_abpoa_align.o -O3 -Wno-misleading-indentation -Wno-error=declaration-after-statement -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES x86_64-linux-gnu-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -fPIC -Iinclude/ -I/usr/include/python3.12 -c src/simd_check.c -o build/temp.linux-x86_64-cpython-312/src/simd_check.o -O3 -Wno-misleading-indentation -Wno-error=declaration-after-statement -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES In file included from src/simd_check.c:1: src/simd_instruction.h:614:14: warning: ‘SIMDMalloc’ defined but not used [-Wunused-function] 614 | static void *SIMDMalloc(size_t size, size_t align) { | ^~~~~~~~~~ x86_64-linux-gnu-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -fPIC -Iinclude/ -I/usr/include/python3.12 -c src/utils.c -o build/temp.linux-x86_64-cpython-312/src/utils.o -O3 -Wno-misleading-indentation -Wno-error=declaration-after-statement -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES x86_64-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES build/temp.linux-x86_64-cpython-312/python/pyabpoa.o build/temp.linux-x86_64-cpython-312/src/abpoa_align.o build/temp.linux-x86_64-cpython-312/src/abpoa_graph.o build/temp.linux-x86_64-cpython-312/src/abpoa_output.o build/temp.linux-x86_64-cpython-312/src/abpoa_plot.o build/temp.linux-x86_64-cpython-312/src/abpoa_seed.o build/temp.linux-x86_64-cpython-312/src/abpoa_seq.o build/temp.linux-x86_64-cpython-312/src/kalloc.o build/temp.linux-x86_64-cpython-312/src/kstring.o build/temp.linux-x86_64-cpython-312/src/simd_abpoa_align.o build/temp.linux-x86_64-cpython-312/src/simd_check.o build/temp.linux-x86_64-cpython-312/src/utils.o -L/usr/lib/x86_64-linux-gnu -lz -lm -lpthread -o /build/reproducible-path/abpoa-1.5.3/.pybuild/cpython3_3.12_pyabpoa/build/pyabpoa.cpython-312-x86_64-linux-gnu.so debian/rules execute_after_dh_auto_build make[1]: Entering directory '/build/reproducible-path/abpoa-1.5.3' set -e \ ; for SIMDE in avx2 avx sse4.1 ssse3 sse3 \ ; do CFLAGS="-g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -m${SIMDE}" \ CXXFLAGS="-g -O2 -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -m${SIMDE}" \ dh_auto_build --buildsystem=makefile -- all \ ; mv -v bin/abpoa bin/abpoa.${SIMDE} \ ; dh_auto_clean --buildsystem=makefile -- clean \ ; done make -j20 "INSTALL=install --strip-program=true" all make[2]: Entering directory '/build/reproducible-path/abpoa-1.5.3' cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -mavx2 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now -I./include src/abpoa.c -o src/abpoa.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -mavx2 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now src/abpoa_align.c -I./include -o src/abpoa_align.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -mavx2 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now src/abpoa_graph.c -I./include -o src/abpoa_graph.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -mavx2 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now src/abpoa_plot.c -I./include -o src/abpoa_plot.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -mavx2 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now src/abpoa_seed.c -I./include -o src/abpoa_seed.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -mavx2 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now src/abpoa_seq.c -I./include -o src/abpoa_seq.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -mavx2 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now src/abpoa_output.c -I./include -o src/abpoa_output.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -mavx2 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now src/kalloc.c -I./include -o src/kalloc.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -mavx2 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now src/kstring.c -I./include -o src/kstring.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -mavx2 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now -I./include src/simd_abpoa_align.c -o src/simd_abpoa_align.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -mavx2 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now -I./include src/simd_check.c -o src/simd_check.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -mavx2 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now src/utils.c -I./include -o src/utils.o In file included from /usr/include/string.h:548, from src/abpoa_seed.c:4: In function ‘memset’, inlined from ‘abpoa_dp_chaining’ at src/abpoa_seed.c:549:36: /usr/include/x86_64-linux-gnu/bits/string_fortified.h:59:10: warning: ‘__builtin_memset’ specified size between 18446744071562067968 and 18446744073709551615 exceeds maximum object size 9223372036854775807 [-Wstringop-overflow=] 59 | return __builtin___memset_chk (__dest, __ch, __len, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 60 | __glibc_objsize0 (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~ if [ ! -d ./lib ]; then mkdir ./lib; fi ar -csr lib/libabpoa.a ./src/abpoa_align.o ./src/abpoa_graph.o ./src/abpoa_plot.o ./src/abpoa_seed.o ./src/abpoa_seq.o ./src/abpoa_output.o ./src/kalloc.o ./src/kstring.o ./src/simd_abpoa_align.o ./src/simd_check.o ./src/utils.o if [ ! -d ./bin ]; then mkdir ./bin; fi cc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -mavx2 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now src/abpoa.o -I./include -L./lib -labpoa -lm -lz -lpthread -o bin/abpoa make[2]: Leaving directory '/build/reproducible-path/abpoa-1.5.3' renamed 'bin/abpoa' -> 'bin/abpoa.avx2' make -j20 clean clean make[2]: Entering directory '/build/reproducible-path/abpoa-1.5.3' rm -f ./src/*.[oa] ./lib/*.[oa] ./bin/abpoa make[2]: 'clean' is up to date. make[2]: Leaving directory '/build/reproducible-path/abpoa-1.5.3' make -j20 "INSTALL=install --strip-program=true" all make[2]: Entering directory '/build/reproducible-path/abpoa-1.5.3' cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -mavx -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now -I./include src/abpoa.c -o src/abpoa.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -mavx -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now src/abpoa_align.c -I./include -o src/abpoa_align.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -mavx -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now src/abpoa_graph.c -I./include -o src/abpoa_graph.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -mavx -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now src/abpoa_plot.c -I./include -o src/abpoa_plot.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -mavx -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now src/abpoa_seed.c -I./include -o src/abpoa_seed.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -mavx -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now src/abpoa_seq.c -I./include -o src/abpoa_seq.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -mavx -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now src/abpoa_output.c -I./include -o src/abpoa_output.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -mavx -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now src/kalloc.c -I./include -o src/kalloc.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -mavx -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now src/kstring.c -I./include -o src/kstring.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -mavx -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now -I./include src/simd_abpoa_align.c -o src/simd_abpoa_align.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -mavx -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now -I./include src/simd_check.c -o src/simd_check.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -mavx -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now src/utils.c -I./include -o src/utils.o In file included from /usr/include/string.h:548, from src/abpoa_seed.c:4: In function ‘memset’, inlined from ‘abpoa_dp_chaining’ at src/abpoa_seed.c:549:36: /usr/include/x86_64-linux-gnu/bits/string_fortified.h:59:10: warning: ‘__builtin_memset’ specified size between 18446744071562067968 and 18446744073709551615 exceeds maximum object size 9223372036854775807 [-Wstringop-overflow=] 59 | return __builtin___memset_chk (__dest, __ch, __len, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 60 | __glibc_objsize0 (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~ if [ ! -d ./lib ]; then mkdir ./lib; fi ar -csr lib/libabpoa.a ./src/abpoa_align.o ./src/abpoa_graph.o ./src/abpoa_plot.o ./src/abpoa_seed.o ./src/abpoa_seq.o ./src/abpoa_output.o ./src/kalloc.o ./src/kstring.o ./src/simd_abpoa_align.o ./src/simd_check.o ./src/utils.o if [ ! -d ./bin ]; then mkdir ./bin; fi cc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -mavx -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now src/abpoa.o -I./include -L./lib -labpoa -lm -lz -lpthread -o bin/abpoa make[2]: Leaving directory '/build/reproducible-path/abpoa-1.5.3' renamed 'bin/abpoa' -> 'bin/abpoa.avx' make -j20 clean clean make[2]: Entering directory '/build/reproducible-path/abpoa-1.5.3' rm -f ./src/*.[oa] ./lib/*.[oa] ./bin/abpoa make[2]: 'clean' is up to date. make[2]: Leaving directory '/build/reproducible-path/abpoa-1.5.3' make -j20 "INSTALL=install --strip-program=true" all make[2]: Entering directory '/build/reproducible-path/abpoa-1.5.3' cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -msse4.1 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now -I./include src/abpoa.c -o src/abpoa.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -msse4.1 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now src/abpoa_align.c -I./include -o src/abpoa_align.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -msse4.1 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now src/abpoa_graph.c -I./include -o src/abpoa_graph.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -msse4.1 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now src/abpoa_plot.c -I./include -o src/abpoa_plot.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -msse4.1 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now src/abpoa_seed.c -I./include -o src/abpoa_seed.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -msse4.1 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now src/abpoa_seq.c -I./include -o src/abpoa_seq.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -msse4.1 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now src/abpoa_output.c -I./include -o src/abpoa_output.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -msse4.1 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now src/kalloc.c -I./include -o src/kalloc.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -msse4.1 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now src/kstring.c -I./include -o src/kstring.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -msse4.1 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now -I./include src/simd_abpoa_align.c -o src/simd_abpoa_align.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -msse4.1 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now -I./include src/simd_check.c -o src/simd_check.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -msse4.1 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now src/utils.c -I./include -o src/utils.o In file included from /usr/include/string.h:548, from src/abpoa_seed.c:4: In function ‘memset’, inlined from ‘abpoa_dp_chaining’ at src/abpoa_seed.c:549:36: /usr/include/x86_64-linux-gnu/bits/string_fortified.h:59:10: warning: ‘__builtin_memset’ specified size between 18446744071562067968 and 18446744073709551615 exceeds maximum object size 9223372036854775807 [-Wstringop-overflow=] 59 | return __builtin___memset_chk (__dest, __ch, __len, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 60 | __glibc_objsize0 (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~ if [ ! -d ./lib ]; then mkdir ./lib; fi ar -csr lib/libabpoa.a ./src/abpoa_align.o ./src/abpoa_graph.o ./src/abpoa_plot.o ./src/abpoa_seed.o ./src/abpoa_seq.o ./src/abpoa_output.o ./src/kalloc.o ./src/kstring.o ./src/simd_abpoa_align.o ./src/simd_check.o ./src/utils.o if [ ! -d ./bin ]; then mkdir ./bin; fi cc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -msse4.1 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now src/abpoa.o -I./include -L./lib -labpoa -lm -lz -lpthread -o bin/abpoa make[2]: Leaving directory '/build/reproducible-path/abpoa-1.5.3' renamed 'bin/abpoa' -> 'bin/abpoa.sse4.1' make -j20 clean clean make[2]: Entering directory '/build/reproducible-path/abpoa-1.5.3' rm -f ./src/*.[oa] ./lib/*.[oa] ./bin/abpoa make[2]: 'clean' is up to date. make[2]: Leaving directory '/build/reproducible-path/abpoa-1.5.3' make -j20 "INSTALL=install --strip-program=true" all make[2]: Entering directory '/build/reproducible-path/abpoa-1.5.3' cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -mssse3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now -I./include src/abpoa.c -o src/abpoa.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -mssse3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now src/abpoa_align.c -I./include -o src/abpoa_align.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -mssse3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now src/abpoa_graph.c -I./include -o src/abpoa_graph.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -mssse3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now src/abpoa_plot.c -I./include -o src/abpoa_plot.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -mssse3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now src/abpoa_seed.c -I./include -o src/abpoa_seed.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -mssse3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now src/abpoa_seq.c -I./include -o src/abpoa_seq.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -mssse3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now src/abpoa_output.c -I./include -o src/abpoa_output.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -mssse3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now src/kalloc.c -I./include -o src/kalloc.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -mssse3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now src/kstring.c -I./include -o src/kstring.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -mssse3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now -I./include src/simd_abpoa_align.c -o src/simd_abpoa_align.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -mssse3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now -I./include src/simd_check.c -o src/simd_check.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -mssse3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now src/utils.c -I./include -o src/utils.o In file included from /usr/include/string.h:548, from src/abpoa_seed.c:4: In function ‘memset’, inlined from ‘abpoa_dp_chaining’ at src/abpoa_seed.c:549:36: /usr/include/x86_64-linux-gnu/bits/string_fortified.h:59:10: warning: ‘__builtin_memset’ specified size between 18446744071562067968 and 18446744073709551615 exceeds maximum object size 9223372036854775807 [-Wstringop-overflow=] 59 | return __builtin___memset_chk (__dest, __ch, __len, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 60 | __glibc_objsize0 (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~ if [ ! -d ./lib ]; then mkdir ./lib; fi ar -csr lib/libabpoa.a ./src/abpoa_align.o ./src/abpoa_graph.o ./src/abpoa_plot.o ./src/abpoa_seed.o ./src/abpoa_seq.o ./src/abpoa_output.o ./src/kalloc.o ./src/kstring.o ./src/simd_abpoa_align.o ./src/simd_check.o ./src/utils.o if [ ! -d ./bin ]; then mkdir ./bin; fi cc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -mssse3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now src/abpoa.o -I./include -L./lib -labpoa -lm -lz -lpthread -o bin/abpoa make[2]: Leaving directory '/build/reproducible-path/abpoa-1.5.3' renamed 'bin/abpoa' -> 'bin/abpoa.ssse3' make -j20 clean clean make[2]: Entering directory '/build/reproducible-path/abpoa-1.5.3' rm -f ./src/*.[oa] ./lib/*.[oa] ./bin/abpoa make[2]: 'clean' is up to date. make[2]: Leaving directory '/build/reproducible-path/abpoa-1.5.3' make -j20 "INSTALL=install --strip-program=true" all make[2]: Entering directory '/build/reproducible-path/abpoa-1.5.3' cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -msse3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now -I./include src/abpoa.c -o src/abpoa.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -msse3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now src/abpoa_align.c -I./include -o src/abpoa_align.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -msse3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now src/abpoa_graph.c -I./include -o src/abpoa_graph.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -msse3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now src/abpoa_plot.c -I./include -o src/abpoa_plot.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -msse3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now src/abpoa_seed.c -I./include -o src/abpoa_seed.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -msse3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now src/abpoa_seq.c -I./include -o src/abpoa_seq.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -msse3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now src/abpoa_output.c -I./include -o src/abpoa_output.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -msse3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now src/kalloc.c -I./include -o src/kalloc.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -msse3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now src/kstring.c -I./include -o src/kstring.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -msse3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now -I./include src/simd_abpoa_align.c -o src/simd_abpoa_align.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -msse3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now -I./include src/simd_check.c -o src/simd_check.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -msse3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now src/utils.c -I./include -o src/utils.o In file included from /usr/include/string.h:548, from src/abpoa_seed.c:4: In function ‘memset’, inlined from ‘abpoa_dp_chaining’ at src/abpoa_seed.c:549:36: /usr/include/x86_64-linux-gnu/bits/string_fortified.h:59:10: warning: ‘__builtin_memset’ specified size between 18446744071562067968 and 18446744073709551615 exceeds maximum object size 9223372036854775807 [-Wstringop-overflow=] 59 | return __builtin___memset_chk (__dest, __ch, __len, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 60 | __glibc_objsize0 (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~ if [ ! -d ./lib ]; then mkdir ./lib; fi ar -csr lib/libabpoa.a ./src/abpoa_align.o ./src/abpoa_graph.o ./src/abpoa_plot.o ./src/abpoa_seed.o ./src/abpoa_seq.o ./src/abpoa_output.o ./src/kalloc.o ./src/kstring.o ./src/simd_abpoa_align.o ./src/simd_check.o ./src/utils.o if [ ! -d ./bin ]; then mkdir ./bin; fi cc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -msse3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now src/abpoa.o -I./include -L./lib -labpoa -lm -lz -lpthread -o bin/abpoa make[2]: Leaving directory '/build/reproducible-path/abpoa-1.5.3' renamed 'bin/abpoa' -> 'bin/abpoa.sse3' make -j20 clean clean make[2]: Entering directory '/build/reproducible-path/abpoa-1.5.3' rm -f ./src/*.[oa] ./lib/*.[oa] ./bin/abpoa make[2]: 'clean' is up to date. make[2]: Leaving directory '/build/reproducible-path/abpoa-1.5.3' dh_auto_build --buildsystem=makefile -- all make -j20 "INSTALL=install --strip-program=true" all make[2]: Entering directory '/build/reproducible-path/abpoa-1.5.3' cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now -I./include src/abpoa.c -o src/abpoa.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now src/abpoa_align.c -I./include -o src/abpoa_align.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now src/abpoa_graph.c -I./include -o src/abpoa_graph.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now src/abpoa_plot.c -I./include -o src/abpoa_plot.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now src/abpoa_seed.c -I./include -o src/abpoa_seed.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now src/abpoa_seq.c -I./include -o src/abpoa_seq.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now src/abpoa_output.c -I./include -o src/abpoa_output.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now src/kalloc.c -I./include -o src/kalloc.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now src/kstring.c -I./include -o src/kstring.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now -I./include src/simd_abpoa_align.c -o src/simd_abpoa_align.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now -I./include src/simd_check.c -o src/simd_check.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now src/utils.c -I./include -o src/utils.o In file included from /usr/include/string.h:548, from src/abpoa_seed.c:4: In function ‘memset’, inlined from ‘abpoa_dp_chaining’ at src/abpoa_seed.c:549:36: /usr/include/x86_64-linux-gnu/bits/string_fortified.h:59:10: warning: ‘__builtin_memset’ specified size between 18446744071562067968 and 18446744073709551615 exceeds maximum object size 9223372036854775807 [-Wstringop-overflow=] 59 | return __builtin___memset_chk (__dest, __ch, __len, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 60 | __glibc_objsize0 (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~ if [ ! -d ./lib ]; then mkdir ./lib; fi ar -csr lib/libabpoa.a ./src/abpoa_align.o ./src/abpoa_graph.o ./src/abpoa_plot.o ./src/abpoa_seed.o ./src/abpoa_seq.o ./src/abpoa_output.o ./src/kalloc.o ./src/kstring.o ./src/simd_abpoa_align.o ./src/simd_check.o ./src/utils.o if [ ! -d ./bin ]; then mkdir ./bin; fi cc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/abpoa-1.5.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now src/abpoa.o -I./include -L./lib -labpoa -lm -lz -lpthread -o bin/abpoa make[2]: Leaving directory '/build/reproducible-path/abpoa-1.5.3' mv -v bin/abpoa bin/abpoa.generic renamed 'bin/abpoa' -> 'bin/abpoa.generic' cp debian/abpoa-dispatch.sh bin/abpoa make[1]: Leaving directory '/build/reproducible-path/abpoa-1.5.3' debian/rules override_dh_auto_test make[1]: Entering directory '/build/reproducible-path/abpoa-1.5.3' # Tests from the README.md document ./bin/abpoa ./test_data/seq.fa > cons.fa [main] CMD: ./bin/abpoa.avx ./test_data/seq.fa [abpoa_main] Real time: 0.007 sec; CPU: 0.006 sec; Peak RSS: 0.003 GB. ./bin/abpoa ./test_data/heter.fa > 2cons.fa [main] CMD: ./bin/abpoa.avx ./test_data/heter.fa [abpoa_main] Real time: 0.043 sec; CPU: 0.029 sec; Peak RSS: 0.009 GB. ./bin/abpoa -r1 ./test_data/seq.fa > out.msa [main] CMD: ./bin/abpoa.avx -r1 ./test_data/seq.fa [abpoa_main] Real time: 0.001 sec; CPU: 0.006 sec; Peak RSS: 0.003 GB. ./bin/abpoa -r2 ./test_data/seq.fa > out_cons.msa [main] CMD: ./bin/abpoa.avx -r2 ./test_data/seq.fa [abpoa_main] Real time: 0.001 sec; CPU: 0.006 sec; Peak RSS: 0.003 GB. ./bin/abpoa -r3 ./test_data/seq.fa > out.gfa [main] CMD: ./bin/abpoa.avx -r3 ./test_data/seq.fa [abpoa_main] Real time: 0.003 sec; CPU: 0.006 sec; Peak RSS: 0.003 GB. ./bin/abpoa -r4 ./test_data/seq.fa > out4.gfa [main] CMD: ./bin/abpoa.avx -r4 ./test_data/seq.fa [abpoa_main] Real time: 0.002 sec; CPU: 0.007 sec; Peak RSS: 0.003 GB. cp out.gfa in.gfa cp out.msa in.msa ./bin/abpoa -i in.gfa ./test_data/seq.fa -r3 > out.gfa [main] CMD: ./bin/abpoa.avx -i in.gfa -r3 ./test_data/seq.fa [abpoa_main] Real time: 0.003 sec; CPU: 0.007 sec; Peak RSS: 0.003 GB. ./bin/abpoa -i in.msa ./test_data/seq.fa -r1 > out.msa [main] CMD: ./bin/abpoa.avx -i in.msa -r1 ./test_data/seq.fa [abpoa_main] Real time: 0.001 sec; CPU: 0.007 sec; Peak RSS: 0.003 GB. ./bin/abpoa ./test_data/seq.fa -g poa.png > cons.fa [main] CMD: ./bin/abpoa.avx -g poa.png ./test_data/seq.fa [abpoa_main] Real time: 2.579 sec; CPU: 0.008 sec; Peak RSS: 0.003 GB. ./bin/abpoa ./test_data/heter.fa -d2 [main] CMD: ./bin/abpoa.avx -d2 ./test_data/heter.fa [abpoa_main] Real time: 0.051 sec; CPU: 0.033 sec; Peak RSS: 0.011 GB. >Consensus_sequence_1 0,2,3,4,10,13,14 CCATTCCCACCATCCTTACCATCAACATCACCATCCCCACCATCCCCAACACCATTCCCACCATCCCTACCATCACCATCACCATCCCCACCAACATCCCCACCACCATCCTCACTACCATCCCCACCACCATTTCCACCATTCCCACCACAGTCACCATCACCCCCACCATCCCCATCATCATCCGCACCATCCCCACCATCCCCACCACCATCTCCATTACCATCCCCACCACCATCTCCATTACCATCCCCACCACCATCCCCATTACCATCCCCACCACCATCCCCATTACCATCCCCACCACCATTTCCACCATTCCCACCATCATCCCCACCACCATCCTCGTTACCATCCCCACCACCTTTTCCACCATTCCCACCATCTCCAACACCTCCCCCACCATCATCCCCACCATCCCCACCACCTTCTCCACCATCATTCTCACCATCCCCACCACCATCTCCACCACCATTCTCACCATCTCCACCAACATCCCCACCATCCCCACCCCCATGCCCACCAACATCCCCACCATCCCCACCCCCATGCCCACCAACATCCCCACCATCCCCACCCCCATGCCCACCATCATCCCCACCATCC >Consensus_sequence_2 1,5,6,7,8,9,11,12 CCATTCCCACCATCCTTACCATCAACATCACCATCCCCACCATCCCCAACACCATTCCCACCATCCCTACCATCACCATCACCATCCCCACCAACATCCCCACCACCATCCTCACTACCATCCCCACCACCATTTCCACCATTCCCACCACAGTCACCATCACCCCCACCATCCCCATCATCATCCGCACCATCCCCACCATCCCCACCACCATCTCCATTACCATCCCCACCACCATCCCCATTACCATCCCCACCACCATCCCCATTACCATCCCCACCACCATTTCCACCATTCCCACCATCATCCCCACCACCATCCTCGTTACCATCCCCACCACCATCCCCATTACCATCCCCACCACCATTTCCACCATTCCCACCATCATCCCCACCACCATCCCCATTACCATCCCCACCACCATCCCCATTACCATCCCCACCACCATTTCCACCATTCCCACCATCATCCCCACCACCATCCTCGTTACCATCCCCACCACCTTTTCCACCATTCCCACCATCATCCCCACCGCCATCCTCGTTACCATCCCCACCACCTTTTCCACCATTCCCACCATCTCCAACACCTCCCCCACCATCATCCCCACCATCCCCACCACCTTCTCCACCATCATTCTCACCATCCCCACCACCATCTCCACCACCATTCTCACCATCTCCACCAACATCCCCACCATCCCCACCCCCATGCCCACCAACATCCCCACCATCCCCACCCCCATGCCCACCATCATCCCCACCATCC make[1]: Leaving directory '/build/reproducible-path/abpoa-1.5.3' create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=pybuild dh_prep -O--buildsystem=pybuild dh_auto_install -O--buildsystem=pybuild I: pybuild base:311: /usr/bin/python3.13 setup.py install --root /build/reproducible-path/abpoa-1.5.3/debian/python3-pyabpoa /usr/lib/python3/dist-packages/setuptools/__init__.py:94: _DeprecatedInstaller: setuptools.installer and fetch_build_eggs are deprecated. !! ******************************************************************************** Requirements should be satisfied by a PEP 517 installer. If you are using pip, you can try `pip install --use-pep517`. ******************************************************************************** !! dist.fetch_build_eggs(dist.setup_requires) running install /usr/lib/python3/dist-packages/setuptools/_distutils/cmd.py:66: 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/abpoa-1.5.3/debian/python3-pyabpoa/usr/lib/python3.13/dist-packages copying /build/reproducible-path/abpoa-1.5.3/.pybuild/cpython3_3.13_pyabpoa/build/pyabpoa.cpython-313-x86_64-linux-gnu.so -> /build/reproducible-path/abpoa-1.5.3/debian/python3-pyabpoa/usr/lib/python3.13/dist-packages running install_egg_info running egg_info creating pyabpoa.egg-info writing pyabpoa.egg-info/PKG-INFO writing dependency_links to pyabpoa.egg-info/dependency_links.txt writing top-level names to pyabpoa.egg-info/top_level.txt writing manifest file 'pyabpoa.egg-info/SOURCES.txt' reading manifest file 'pyabpoa.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' adding license file 'LICENSE' writing manifest file 'pyabpoa.egg-info/SOURCES.txt' Copying pyabpoa.egg-info to /build/reproducible-path/abpoa-1.5.3/debian/python3-pyabpoa/usr/lib/python3.13/dist-packages/pyabpoa-1.5.3.egg-info Skipping SOURCES.txt running install_scripts I: pybuild base:311: /usr/bin/python3 setup.py install --root /build/reproducible-path/abpoa-1.5.3/debian/python3-pyabpoa /usr/lib/python3/dist-packages/setuptools/__init__.py:94: _DeprecatedInstaller: setuptools.installer and fetch_build_eggs are deprecated. !! ******************************************************************************** Requirements should be satisfied by a PEP 517 installer. If you are using pip, you can try `pip install --use-pep517`. ******************************************************************************** !! dist.fetch_build_eggs(dist.setup_requires) running install /usr/lib/python3/dist-packages/setuptools/_distutils/cmd.py:66: 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/abpoa-1.5.3/debian/python3-pyabpoa/usr/lib/python3.12/dist-packages copying /build/reproducible-path/abpoa-1.5.3/.pybuild/cpython3_3.12_pyabpoa/build/pyabpoa.cpython-312-x86_64-linux-gnu.so -> /build/reproducible-path/abpoa-1.5.3/debian/python3-pyabpoa/usr/lib/python3.12/dist-packages running install_egg_info running egg_info writing pyabpoa.egg-info/PKG-INFO writing dependency_links to pyabpoa.egg-info/dependency_links.txt writing top-level names to pyabpoa.egg-info/top_level.txt reading manifest file 'pyabpoa.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' adding license file 'LICENSE' writing manifest file 'pyabpoa.egg-info/SOURCES.txt' Copying pyabpoa.egg-info to /build/reproducible-path/abpoa-1.5.3/debian/python3-pyabpoa/usr/lib/python3.12/dist-packages/pyabpoa-1.5.3.egg-info Skipping SOURCES.txt running install_scripts dh_install -O--buildsystem=pybuild dh_installdocs -O--buildsystem=pybuild dh_installchangelogs -O--buildsystem=pybuild dh_installexamples -O--buildsystem=pybuild dh_installman -O--buildsystem=pybuild dh_python3 -O--buildsystem=pybuild dh_installsystemduser -O--buildsystem=pybuild dh_perl -O--buildsystem=pybuild dh_link -O--buildsystem=pybuild dh_strip_nondeterminism -O--buildsystem=pybuild dh_compress -O--buildsystem=pybuild dh_fixperms -O--buildsystem=pybuild dh_missing -O--buildsystem=pybuild dh_dwz -a -O--buildsystem=pybuild dh_strip -a -O--buildsystem=pybuild dh_makeshlibs -a -O--buildsystem=pybuild dh_shlibdeps -a -O--buildsystem=pybuild dh_installdeb -O--buildsystem=pybuild debian/rules override_dh_gencontrol make[1]: Entering directory '/build/reproducible-path/abpoa-1.5.3' dh_gencontrol -- \ -Vsimde:Built-Using="simde (= 0.8.2-1), " make[1]: Leaving directory '/build/reproducible-path/abpoa-1.5.3' dh_md5sums -O--buildsystem=pybuild dh_builddeb -O--buildsystem=pybuild dpkg-deb: building package 'abpoa' in '../abpoa_1.5.3-1_amd64.deb'. dpkg-deb: building package 'python3-pyabpoa' in '../python3-pyabpoa_1.5.3-1_amd64.deb'. dpkg-deb: building package 'abpoa-dbgsym' in '../abpoa-dbgsym_1.5.3-1_amd64.deb'. dpkg-deb: building package 'python3-pyabpoa-dbgsym' in '../python3-pyabpoa-dbgsym_1.5.3-1_amd64.deb'. dpkg-genbuildinfo --build=binary -O../abpoa_1.5.3-1_amd64.buildinfo dpkg-genchanges --build=binary -O../abpoa_1.5.3-1_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: including full 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/647810 and its subdirectories I: Current time: Fri Nov 22 15:09:15 -12 2024 I: pbuilder-time-stamp: 1732331355 Sat Nov 23 03:09:17 UTC 2024 I: 1st build successful. Starting 2nd build on remote node ionos15-amd64.debian.net. Sat Nov 23 03:09:17 UTC 2024 I: Preparing to do remote build '2' on ionos15-amd64.debian.net. Sat Nov 23 03:14:22 UTC 2024 I: Deleting $TMPDIR on ionos15-amd64.debian.net. Sat Nov 23 03:14:22 UTC 2024 I: abpoa_1.5.3-1_amd64.changes: Format: 1.8 Date: Wed, 25 Sep 2024 20:52:28 +0200 Source: abpoa Binary: abpoa abpoa-dbgsym python3-pyabpoa python3-pyabpoa-dbgsym Architecture: amd64 Version: 1.5.3-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Étienne Mollier Description: abpoa - adaptive banded Partial Order Alignment python3-pyabpoa - adaptive banded Partial Order Alignment - python3 module Changes: abpoa (1.5.3-1) unstable; urgency=medium . * New upstream version 1.5.3 * relax-cython-dep.patch: unfuzz. * d/m/abpoa.1: bumped date and version. Otherwise no changes needed. Checksums-Sha1: 845de703184aef845b09f65358591b66e9d11d8d 1942432 abpoa-dbgsym_1.5.3-1_amd64.deb 871f87be40907fc94450aa4d000968d7aa71087d 9396 abpoa_1.5.3-1_amd64.buildinfo ebbc2cefb78a00e2afa0ec0e7e2139ed65b73b09 297008 abpoa_1.5.3-1_amd64.deb f81c950e8301e3a14452516bb287d48a5346b4d0 1166392 python3-pyabpoa-dbgsym_1.5.3-1_amd64.deb 097f1427a6272328ad113e7e0d981794e5bdfd9f 187796 python3-pyabpoa_1.5.3-1_amd64.deb Checksums-Sha256: 3d9dafcaec405f175dfb8e3483c2209db6e82ab0af3e0cb4c87db7e217ea282f 1942432 abpoa-dbgsym_1.5.3-1_amd64.deb c1afd3bd7432cf638b2bfc16ecda6b8f0a8a81d855ff004e39fa4051011ac9dc 9396 abpoa_1.5.3-1_amd64.buildinfo f2280520205b47137fff8309adf3a72ebadc303187a025e06f0914f9fa4660ae 297008 abpoa_1.5.3-1_amd64.deb 8893bef55cdea1e63c3e88f8815aedadbff623a557b6051011c92b4e313a674d 1166392 python3-pyabpoa-dbgsym_1.5.3-1_amd64.deb 48a6b0c79b6fd78beafb1facfe819f21f6e717dedbfdefc69845d3d60b829b78 187796 python3-pyabpoa_1.5.3-1_amd64.deb Files: 5cdd1675c55f830bad9988ce6e1b59c2 1942432 debug optional abpoa-dbgsym_1.5.3-1_amd64.deb a76da39f6ae32e2dda34538ca0015be4 9396 science optional abpoa_1.5.3-1_amd64.buildinfo 077f2a2f30f7af17f00079f6fbbfb003 297008 science optional abpoa_1.5.3-1_amd64.deb 627c6e7665743ce47e1e7f22ec48709a 1166392 debug optional python3-pyabpoa-dbgsym_1.5.3-1_amd64.deb 80c4ac98d5539b597c411795e36b6c55 187796 python optional python3-pyabpoa_1.5.3-1_amd64.deb Sat Nov 23 03:14:23 UTC 2024 I: diffoscope 283 will be used to compare the two builds: Running as unit: rb-diffoscope-amd64_23-39329.service # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.v594Uh7U/abpoa_1.5.3-1.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.v594Uh7U/abpoa_1.5.3-1.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.v594Uh7U/abpoa_1.5.3-1.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.v594Uh7U/b1/abpoa_1.5.3-1_amd64.changes /srv/reproducible-results/rbuild-debian/r-b-build.v594Uh7U/b2/abpoa_1.5.3-1_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: 0.386s) 0.386s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.048s) 0.048s 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: 706ms CPU time consumed: 707ms Sat Nov 23 03:14:24 UTC 2024 I: diffoscope 283 found no differences in the changes files, and a .buildinfo file also exists. Sat Nov 23 03:14:24 UTC 2024 I: abpoa from unstable built successfully and reproducibly on amd64. Sat Nov 23 03:14:25 UTC 2024 I: Submitting .buildinfo files to external archives: Sat Nov 23 03:14:25 UTC 2024 I: Submitting 12K b1/abpoa_1.5.3-1_amd64.buildinfo.asc Sat Nov 23 03:14:26 UTC 2024 I: Submitting 12K b2/abpoa_1.5.3-1_amd64.buildinfo.asc Sat Nov 23 03:14:27 UTC 2024 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Sat Nov 23 03:14:27 UTC 2024 I: Done submitting .buildinfo files. Sat Nov 23 03:14:27 UTC 2024 I: Removing signed abpoa_1.5.3-1_amd64.buildinfo.asc files: removed './b1/abpoa_1.5.3-1_amd64.buildinfo.asc' removed './b2/abpoa_1.5.3-1_amd64.buildinfo.asc'