Wed May 15 07:16:28 UTC 2024 I: starting to build insilicoseq/trixie/amd64 on jenkins on '2024-05-15 07:16' Wed May 15 07:16:28 UTC 2024 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/amd64_28/20614/console.log Wed May 15 07:16:28 UTC 2024 I: Downloading source for trixie/insilicoseq=2.0.1-1 --2024-05-15 07:16:29-- http://deb.debian.org/debian/pool/main/i/insilicoseq/insilicoseq_2.0.1-1.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2411 (2.4K) [text/prs.lines.tag] Saving to: ‘insilicoseq_2.0.1-1.dsc’ 0K .. 100% 304M=0s 2024-05-15 07:16:29 (304 MB/s) - ‘insilicoseq_2.0.1-1.dsc’ saved [2411/2411] Wed May 15 07:16:29 UTC 2024 I: insilicoseq_2.0.1-1.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: insilicoseq Binary: insilicoseq Architecture: all Version: 2.0.1-1 Maintainer: Debian Med Packaging Team Uploaders: Sao I Kuan , Étienne Mollier Homepage: https://github.com/HadrienG/InSilicoSeq Standards-Version: 4.7.0 Vcs-Browser: https://salsa.debian.org/med-team/insilicoseq Vcs-Git: https://salsa.debian.org/med-team/insilicoseq.git Testsuite: autopkgtest, autopkgtest-pkg-python Testsuite-Triggers: python3-all, python3-pytest Build-Depends: debhelper-compat (= 13), dh-sequence-python3, python3-setuptools, python3-all, python3-biopython, python3-joblib, python3-numpy, python3-pysam, python3-requests, python3-scipy, python3-pytest Package-List: insilicoseq deb science optional arch=all Checksums-Sha1: 76321048416a39e8b1506124b2bd985a4c006d2c 4591338 insilicoseq_2.0.1.orig.tar.gz bb0f811650bd3b776af3540e4fad53e98ff6acb0 5304 insilicoseq_2.0.1-1.debian.tar.xz Checksums-Sha256: a1b452fbb6781c5c04bad269836893bf8d2103215e8d131c37baa95a74b2cbaa 4591338 insilicoseq_2.0.1.orig.tar.gz 3416563e93abf4b8e8f7b271d8eb388c2f4c65a2a9cbcfd6b392392a3448f60b 5304 insilicoseq_2.0.1-1.debian.tar.xz Files: abf80ebd35fbffd360b15548c42c2e95 4591338 insilicoseq_2.0.1.orig.tar.gz 5e5762210b50edc957be75dc7ab03587 5304 insilicoseq_2.0.1-1.debian.tar.xz Dgit: 795db072c0a639fe120f18f528f1a8de3e536842 debian archive/debian/2.0.1-1 https://git.dgit.debian.org/insilicoseq -----BEGIN PGP SIGNATURE----- iQJIBAEBCgAyFiEEj5GyJ8fW8rGUjII2eTz2fo8NEdoFAmYo7YIUHGVtb2xsaWVy QGRlYmlhbi5vcmcACgkQeTz2fo8NEdqIQA//TPTkf2xlJEswzyZwaBowNcOEXmJN FKnEgEmDhcQ+ZVev+qORcWuS5emHPgMDgTQugFK6WOWgdwddHLN6UxT+cO0vnazD P181oHtl6iG5xtW58FTXtjfgEpqATZb1V+vggOKRhDrCqQ/abDQCujePqLrtzchb wgdW8ic+fKpe6ZFGJ9ztNl83K4ybEkU/O1mToM071xgMYDLC+tkEjTyPwizeB90C rhtlaqbmHxdgAYtOdWZDSPpncC7w3FtLUOyWwJY/mnAFvdmZM7BMWlDQX+dYL7LH OLubqmInouY8iDbkhstNt9edB+tDj4xlklsgtZshKUEpuSsbHAbSo7U19zS9AYUV ErhVXxd7LWZtLj/NuiMGhB5FY756zk/hbNxUV6VgHP1r/2aXWotUFsnXcaQ1NH+d pXp4hzyvF2zM8ehcn3CKjPkGPtcJwaj259Dy7XbH1U7yVF+UgT79k6nv7+Ri3Sm2 7MTkJ3MmgP9ifJEtmnLOUH658K76xGX0bwOwv8qekhtGlAfkIsKsPTCjvvWo8ZhX fUfnxgZRNO7n3IxrEoDFmosNu//RIhPa6vwDIPRS4XP0vk9Z8WwDWosGmzBqtP9I 8FXFcvEaERaBFwf45XQM/JV9t9d2/EiMaItIPzoaURMehWkl0gZjMnQlm+08Zl5m n77AGxRebwJfQWs= =/2zu -----END PGP SIGNATURE----- Wed May 15 07:16:29 UTC 2024 I: Checking whether the package is not for us Wed May 15 07:16:29 UTC 2024 I: Starting 1st build on remote node ionos15-amd64.debian.net. Wed May 15 07:16:29 UTC 2024 I: Preparing to do remote build '1' on ionos15-amd64.debian.net. Wed May 15 07:18:41 UTC 2024 I: Deleting $TMPDIR on ionos15-amd64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Tue Jun 17 01:39:34 -12 2025 I: pbuilder-time-stamp: 1750167574 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/trixie-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [insilicoseq_2.0.1-1.dsc] I: copying [./insilicoseq_2.0.1.orig.tar.gz] I: copying [./insilicoseq_2.0.1-1.debian.tar.xz] I: Extracting source gpgv: Signature made Wed Apr 24 11:31:14 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 ./insilicoseq_2.0.1-1.dsc: no acceptable signature found dpkg-source: info: extracting insilicoseq in insilicoseq-2.0.1 dpkg-source: info: unpacking insilicoseq_2.0.1.orig.tar.gz dpkg-source: info: unpacking insilicoseq_2.0.1-1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying no-internet.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/2757831/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build/reproducible-path' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='amd64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=42 ' DISTRIBUTION='trixie' HOME='/root' HOST_ARCH='amd64' IFS=' ' INVOCATION_ID='7b3f240b5bd540a2be9139677a726da3' 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='2757831' 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.ZQlhd5JZ/pbuilderrc_aq2X --distribution trixie --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.ZQlhd5JZ/b1 --logfile b1/build.log insilicoseq_2.0.1-1.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://213.165.73.152:3128' I: uname -a Linux ionos15-amd64 6.6.13+bpo-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.6.13-1~bpo12+1 (2024-02-15) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Jun 14 18:01 /bin -> usr/bin I: user script /srv/workspace/pbuilder/2757831/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-sequence-python3, python3-setuptools, python3-all, python3-biopython, python3-joblib, python3-numpy, python3-pysam, python3-requests, python3-scipy, python3-pytest dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19699 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-sequence-python3; however: Package dh-sequence-python3 is not installed. pbuilder-satisfydepends-dummy depends on python3-setuptools; however: Package python3-setuptools is not installed. pbuilder-satisfydepends-dummy depends on python3-all; however: Package python3-all is not installed. pbuilder-satisfydepends-dummy depends on python3-biopython; however: Package python3-biopython is not installed. pbuilder-satisfydepends-dummy depends on python3-joblib; however: Package python3-joblib is not installed. pbuilder-satisfydepends-dummy depends on python3-numpy; however: Package python3-numpy is not installed. pbuilder-satisfydepends-dummy depends on python3-pysam; however: Package python3-pysam is not installed. pbuilder-satisfydepends-dummy depends on python3-requests; however: Package python3-requests is not installed. pbuilder-satisfydepends-dummy depends on python3-scipy; however: Package python3-scipy is not installed. pbuilder-satisfydepends-dummy depends on python3-pytest; however: Package python3-pytest 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} ca-certificates{a} debhelper{a} dh-autoreconf{a} dh-python{a} dh-strip-nondeterminism{a} dwz{a} file{a} fontconfig-config{a} fonts-dejavu-core{a} fonts-dejavu-mono{a} fonts-urw-base35{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libblas3{a} libbrotli1{a} libbsd0{a} libcairo2{a} libcom-err2{a} libcurl3t64-gnutls{a} libdebhelper-perl{a} libdeflate0{a} libelf1t64{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libfontconfig1{a} libfontenc1{a} libfreetype6{a} libfribidi0{a} libgfortran5{a} libglib2.0-0t64{a} libgraphite2-3{a} libgssapi-krb5-2{a} libharfbuzz0b{a} libhts3t64{a} libhtscodecs2{a} libicu72{a} libimagequant0{a} libjbig0{a} libjpeg62-turbo{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} liblapack3{a} liblbfgsb0{a} liblcms2-2{a} libldap-2.5-0{a} liblerc4{a} libmagic-mgc{a} libmagic1t64{a} libnghttp2-14{a} libopenjp2-7{a} libpipeline1{a} libpixman-1-0{a} libpng16-16t64{a} libproc2-0{a} libpsl5t64{a} libpython3-stdlib{a} libpython3.11-minimal{a} libpython3.11-stdlib{a} libpython3.12-minimal{a} libpython3.12-stdlib{a} libraqm0{a} libreadline8t64{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsharpyuv0{a} libssh2-1t64{a} libsub-override-perl{a} libtiff6{a} libtool{a} libuchardet0{a} libwebp7{a} libwebpdemux2{a} libwebpmux3{a} libx11-6{a} libx11-data{a} libxau6{a} libxcb-render0{a} libxcb-shm0{a} libxcb1{a} libxdmcp6{a} libxext6{a} libxml2{a} libxrender1{a} m4{a} man-db{a} media-types{a} netbase{a} openssl{a} po-debconf{a} procps{a} python3{a} python3-all{a} python3-biopython{a} python3-cairo{a} python3-certifi{a} python3-chardet{a} python3-charset-normalizer{a} python3-decorator{a} python3-distutils{a} python3-freetype{a} python3-idna{a} python3-iniconfig{a} python3-joblib{a} python3-lib2to3{a} python3-minimal{a} python3-numpy{a} python3-packaging{a} python3-pil{a} python3-pkg-resources{a} python3-pluggy{a} python3-pysam{a} python3-pytest{a} python3-reportlab{a} python3-requests{a} python3-rlpycairo{a} python3-scipy{a} python3-setuptools{a} python3-six{a} python3-urllib3{a} python3.11{a} python3.11-minimal{a} python3.12{a} python3.12-minimal{a} readline-common{a} sensible-utils{a} sgml-base{a} tzdata{a} w3c-sgml-lib{a} x11-common{a} xfonts-encodings{a} xfonts-utils{a} xml-core{a} The following packages are RECOMMENDED but will NOT be installed: curl fonts-dejavu-extra krb5-locales libarchive-cpio-perl libglib2.0-data libldap-common libltdl-dev libmail-sendmail-perl libsasl2-modules lynx ncbi-blast+ psmisc publicsuffix python-biopython-doc python3-olefile python3-psutil python3-pygments python3-simplejson shared-mime-info wget xdg-user-dirs 0 packages upgraded, 143 newly installed, 0 to remove and 0 not upgraded. Need to get 97.4 MB of archives. After unpacking 401 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian trixie/main amd64 libpython3.11-minimal amd64 3.11.9-1 [817 kB] Get: 2 http://deb.debian.org/debian trixie/main amd64 libexpat1 amd64 2.6.2-1 [103 kB] Get: 3 http://deb.debian.org/debian trixie/main amd64 python3.11-minimal amd64 3.11.9-1 [1879 kB] Get: 4 http://deb.debian.org/debian trixie/main amd64 python3-minimal amd64 3.11.8-1 [26.3 kB] Get: 5 http://deb.debian.org/debian trixie/main amd64 media-types all 10.1.0 [26.9 kB] Get: 6 http://deb.debian.org/debian trixie/main amd64 netbase all 6.4 [12.8 kB] Get: 7 http://deb.debian.org/debian trixie/main amd64 tzdata all 2024a-4 [255 kB] Get: 8 http://deb.debian.org/debian trixie/main amd64 readline-common all 8.2-4 [69.3 kB] Get: 9 http://deb.debian.org/debian trixie/main amd64 libreadline8t64 amd64 8.2-4 [167 kB] Get: 10 http://deb.debian.org/debian trixie/main amd64 libpython3.11-stdlib amd64 3.11.9-1 [1792 kB] Get: 11 http://deb.debian.org/debian trixie/main amd64 python3.11 amd64 3.11.9-1 [602 kB] Get: 12 http://deb.debian.org/debian trixie/main amd64 libpython3-stdlib amd64 3.11.8-1 [9332 B] Get: 13 http://deb.debian.org/debian trixie/main amd64 python3 amd64 3.11.8-1 [27.4 kB] Get: 14 http://deb.debian.org/debian trixie/main amd64 libpython3.12-minimal amd64 3.12.3-1 [809 kB] Get: 15 http://deb.debian.org/debian trixie/main amd64 python3.12-minimal amd64 3.12.3-1 [2139 kB] Get: 16 http://deb.debian.org/debian trixie/main amd64 sgml-base all 1.31 [15.4 kB] Get: 17 http://deb.debian.org/debian trixie/main amd64 libproc2-0 amd64 2:4.0.4-4 [64.6 kB] Get: 18 http://deb.debian.org/debian trixie/main amd64 procps amd64 2:4.0.4-4 [880 kB] Get: 19 http://deb.debian.org/debian trixie/main amd64 sensible-utils all 0.0.22 [22.4 kB] Get: 20 http://deb.debian.org/debian trixie/main amd64 openssl amd64 3.2.1-3 [1360 kB] Get: 21 http://deb.debian.org/debian trixie/main amd64 ca-certificates all 20240203 [158 kB] Get: 22 http://deb.debian.org/debian trixie/main amd64 libmagic-mgc amd64 1:5.45-3 [314 kB] Get: 23 http://deb.debian.org/debian trixie/main amd64 libmagic1t64 amd64 1:5.45-3 [105 kB] Get: 24 http://deb.debian.org/debian trixie/main amd64 file amd64 1:5.45-3 [42.9 kB] Get: 25 http://deb.debian.org/debian trixie/main amd64 gettext-base amd64 0.21-14+b1 [161 kB] Get: 26 http://deb.debian.org/debian trixie/main amd64 libuchardet0 amd64 0.0.8-1+b1 [68.8 kB] Get: 27 http://deb.debian.org/debian trixie/main amd64 groff-base amd64 1.23.0-4 [1180 kB] Get: 28 http://deb.debian.org/debian trixie/main amd64 bsdextrautils amd64 2.40-8 [92.8 kB] Get: 29 http://deb.debian.org/debian trixie/main amd64 libpipeline1 amd64 1.5.7-2 [38.0 kB] Get: 30 http://deb.debian.org/debian trixie/main amd64 man-db amd64 2.12.1-1 [1411 kB] Get: 31 http://deb.debian.org/debian trixie/main amd64 m4 amd64 1.4.19-4 [287 kB] Get: 32 http://deb.debian.org/debian trixie/main amd64 autoconf all 2.71-3 [332 kB] Get: 33 http://deb.debian.org/debian trixie/main amd64 autotools-dev all 20220109.1 [51.6 kB] Get: 34 http://deb.debian.org/debian trixie/main amd64 automake all 1:1.16.5-1.3 [823 kB] Get: 35 http://deb.debian.org/debian trixie/main amd64 autopoint all 0.21-14 [496 kB] Get: 36 http://deb.debian.org/debian trixie/main amd64 libdebhelper-perl all 13.15.3 [88.0 kB] Get: 37 http://deb.debian.org/debian trixie/main amd64 libtool all 2.4.7-7 [517 kB] Get: 38 http://deb.debian.org/debian trixie/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 39 http://deb.debian.org/debian trixie/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 40 http://deb.debian.org/debian trixie/main amd64 libsub-override-perl all 0.10-1 [10.6 kB] Get: 41 http://deb.debian.org/debian trixie/main amd64 libfile-stripnondeterminism-perl all 1.13.1-1 [19.4 kB] Get: 42 http://deb.debian.org/debian trixie/main amd64 dh-strip-nondeterminism all 1.13.1-1 [8620 B] Get: 43 http://deb.debian.org/debian trixie/main amd64 libelf1t64 amd64 0.191-1+b1 [189 kB] Get: 44 http://deb.debian.org/debian trixie/main amd64 dwz amd64 0.15-1+b1 [110 kB] Get: 45 http://deb.debian.org/debian trixie/main amd64 libicu72 amd64 72.1-4+b1 [9395 kB] Get: 46 http://deb.debian.org/debian trixie/main amd64 libxml2 amd64 2.9.14+dfsg-1.3+b3 [692 kB] Get: 47 http://deb.debian.org/debian trixie/main amd64 gettext amd64 0.21-14+b1 [1301 kB] Get: 48 http://deb.debian.org/debian trixie/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 49 http://deb.debian.org/debian trixie/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 50 http://deb.debian.org/debian trixie/main amd64 debhelper all 13.15.3 [901 kB] Get: 51 http://deb.debian.org/debian trixie/main amd64 python3-pkg-resources all 68.1.2-2 [241 kB] Get: 52 http://deb.debian.org/debian trixie/main amd64 python3-lib2to3 all 3.12.3-1 [77.6 kB] Get: 53 http://deb.debian.org/debian trixie/main amd64 python3-distutils all 3.12.3-1 [131 kB] Get: 54 http://deb.debian.org/debian trixie/main amd64 python3-setuptools all 68.1.2-2 [468 kB] Get: 55 http://deb.debian.org/debian trixie/main amd64 dh-python all 6.20240422 [107 kB] Get: 56 http://deb.debian.org/debian trixie/main amd64 fonts-dejavu-mono all 2.37-8 [489 kB] Get: 57 http://deb.debian.org/debian trixie/main amd64 fonts-dejavu-core all 2.37-8 [840 kB] Get: 58 http://deb.debian.org/debian trixie/main amd64 libfontenc1 amd64 1:1.1.8-1 [23.0 kB] Get: 59 http://deb.debian.org/debian trixie/main amd64 libbrotli1 amd64 1.1.0-2+b3 [305 kB] Get: 60 http://deb.debian.org/debian trixie/main amd64 libpng16-16t64 amd64 1.6.43-5 [278 kB] Get: 61 http://deb.debian.org/debian trixie/main amd64 libfreetype6 amd64 2.13.2+dfsg-1+b4 [439 kB] Get: 62 http://deb.debian.org/debian trixie/main amd64 x11-common all 1:7.7+23 [252 kB] Get: 63 http://deb.debian.org/debian trixie/main amd64 xfonts-encodings all 1:1.0.4-2.2 [577 kB] Get: 64 http://deb.debian.org/debian trixie/main amd64 xfonts-utils amd64 1:7.7+6 [93.0 kB] Get: 65 http://deb.debian.org/debian trixie/main amd64 fonts-urw-base35 all 20200910-8 [10.8 MB] Get: 66 http://deb.debian.org/debian trixie/main amd64 fontconfig-config amd64 2.15.0-1.1 [317 kB] Get: 67 http://deb.debian.org/debian trixie/main amd64 libblas3 amd64 3.12.0-3 [148 kB] Get: 68 http://deb.debian.org/debian trixie/main amd64 libbsd0 amd64 0.12.2-1 [131 kB] Get: 69 http://deb.debian.org/debian trixie/main amd64 libfontconfig1 amd64 2.15.0-1.1 [388 kB] Get: 70 http://deb.debian.org/debian trixie/main amd64 libpixman-1-0 amd64 0.42.2-1+b1 [556 kB] Get: 71 http://deb.debian.org/debian trixie/main amd64 libxau6 amd64 1:1.0.9-1+b1 [18.1 kB] Get: 72 http://deb.debian.org/debian trixie/main amd64 libxdmcp6 amd64 1:1.1.2-3+b1 [24.3 kB] Get: 73 http://deb.debian.org/debian trixie/main amd64 libxcb1 amd64 1.15-1 [144 kB] Get: 74 http://deb.debian.org/debian trixie/main amd64 libx11-data all 2:1.8.7-1 [328 kB] Get: 75 http://deb.debian.org/debian trixie/main amd64 libx11-6 amd64 2:1.8.7-1+b1 [799 kB] Get: 76 http://deb.debian.org/debian trixie/main amd64 libxcb-render0 amd64 1.15-1 [115 kB] Get: 77 http://deb.debian.org/debian trixie/main amd64 libxcb-shm0 amd64 1.15-1 [105 kB] Get: 78 http://deb.debian.org/debian trixie/main amd64 libxext6 amd64 2:1.3.4-1+b1 [52.9 kB] Get: 79 http://deb.debian.org/debian trixie/main amd64 libxrender1 amd64 1:0.9.10-1.1+b1 [27.9 kB] Get: 80 http://deb.debian.org/debian trixie/main amd64 libcairo2 amd64 1.18.0-3+b1 [531 kB] Get: 81 http://deb.debian.org/debian trixie/main amd64 libcom-err2 amd64 1.47.1~rc2-1 [22.6 kB] Get: 82 http://deb.debian.org/debian trixie/main amd64 libkrb5support0 amd64 1.20.1-6+b1 [33.3 kB] Get: 83 http://deb.debian.org/debian trixie/main amd64 libk5crypto3 amd64 1.20.1-6+b1 [79.8 kB] Get: 84 http://deb.debian.org/debian trixie/main amd64 libkeyutils1 amd64 1.6.3-3 [8952 B] Get: 85 http://deb.debian.org/debian trixie/main amd64 libkrb5-3 amd64 1.20.1-6+b1 [333 kB] Get: 86 http://deb.debian.org/debian trixie/main amd64 libgssapi-krb5-2 amd64 1.20.1-6+b1 [135 kB] Get: 87 http://deb.debian.org/debian trixie/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg1-6 [19.5 kB] Get: 88 http://deb.debian.org/debian trixie/main amd64 libsasl2-2 amd64 2.1.28+dfsg1-6 [56.9 kB] Get: 89 http://deb.debian.org/debian trixie/main amd64 libldap-2.5-0 amd64 2.5.17+dfsg-1 [186 kB] Get: 90 http://deb.debian.org/debian trixie/main amd64 libnghttp2-14 amd64 1.61.0-1+b1 [75.6 kB] Get: 91 http://deb.debian.org/debian trixie/main amd64 libpsl5t64 amd64 0.21.2-1.1 [56.8 kB] Get: 92 http://deb.debian.org/debian trixie/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b4 [58.5 kB] Get: 93 http://deb.debian.org/debian trixie/main amd64 libssh2-1t64 amd64 1.11.0-4.1+b2 [215 kB] Get: 94 http://deb.debian.org/debian trixie/main amd64 libcurl3t64-gnutls amd64 8.7.1-5 [433 kB] Get: 95 http://deb.debian.org/debian trixie/main amd64 libdeflate0 amd64 1.20-1 [46.0 kB] Get: 96 http://deb.debian.org/debian trixie/main amd64 libfribidi0 amd64 1.0.13-3+b1 [71.4 kB] Get: 97 http://deb.debian.org/debian trixie/main amd64 libgfortran5 amd64 14-20240330-1 [836 kB] Get: 98 http://deb.debian.org/debian trixie/main amd64 libglib2.0-0t64 amd64 2.80.2-1 [1485 kB] Get: 99 http://deb.debian.org/debian trixie/main amd64 libgraphite2-3 amd64 1.3.14-2 [74.9 kB] Get: 100 http://deb.debian.org/debian trixie/main amd64 libharfbuzz0b amd64 8.3.0-2+b1 [2214 kB] Get: 101 http://deb.debian.org/debian trixie/main amd64 libhtscodecs2 amd64 1.6.0-1+b1 [93.0 kB] Get: 102 http://deb.debian.org/debian trixie/main amd64 libhts3t64 amd64 1.19+ds-1.1+b1 [448 kB] Get: 103 http://deb.debian.org/debian trixie/main amd64 libimagequant0 amd64 2.18.0-1+b1 [35.3 kB] Get: 104 http://deb.debian.org/debian trixie/main amd64 libjbig0 amd64 2.1-6.1+b1 [32.0 kB] Get: 105 http://deb.debian.org/debian trixie/main amd64 libjpeg62-turbo amd64 1:2.1.5-3 [167 kB] Get: 106 http://deb.debian.org/debian trixie/main amd64 liblapack3 amd64 3.12.0-3 [2407 kB] Get: 107 http://deb.debian.org/debian trixie/main amd64 liblbfgsb0 amd64 3.0+dfsg.4-1+b1 [29.1 kB] Get: 108 http://deb.debian.org/debian trixie/main amd64 liblcms2-2 amd64 2.14-2+b1 [154 kB] Get: 109 http://deb.debian.org/debian trixie/main amd64 liblerc4 amd64 4.0.0+ds-4+b1 [171 kB] Get: 110 http://deb.debian.org/debian trixie/main amd64 libopenjp2-7 amd64 2.5.0-2+b3 [190 kB] Get: 111 http://deb.debian.org/debian trixie/main amd64 libpython3.12-stdlib amd64 3.12.3-1 [1951 kB] Get: 112 http://deb.debian.org/debian trixie/main amd64 libraqm0 amd64 0.10.1-1+b1 [14.2 kB] Get: 113 http://deb.debian.org/debian trixie/main amd64 libsharpyuv0 amd64 1.4.0-0.1 [113 kB] Get: 114 http://deb.debian.org/debian trixie/main amd64 libwebp7 amd64 1.4.0-0.1 [311 kB] Get: 115 http://deb.debian.org/debian trixie/main amd64 libtiff6 amd64 4.5.1+git230720-4 [322 kB] Get: 116 http://deb.debian.org/debian trixie/main amd64 libwebpdemux2 amd64 1.4.0-0.1 [110 kB] Get: 117 http://deb.debian.org/debian trixie/main amd64 libwebpmux3 amd64 1.4.0-0.1 [123 kB] Get: 118 http://deb.debian.org/debian trixie/main amd64 python3.12 amd64 3.12.3-1 [659 kB] Get: 119 http://deb.debian.org/debian trixie/main amd64 python3-all amd64 3.11.8-1 [1056 B] Get: 120 http://deb.debian.org/debian trixie/main amd64 python3-numpy amd64 1:1.26.4+ds-8 [5466 kB] Get: 121 http://deb.debian.org/debian trixie/main amd64 python3-chardet all 5.2.0+dfsg-1 [107 kB] Get: 122 http://deb.debian.org/debian trixie/main amd64 python3-pil amd64 10.3.0-2 [564 kB] Get: 123 http://deb.debian.org/debian trixie/main amd64 python3-cairo amd64 1.26.0-1 [142 kB] Get: 124 http://deb.debian.org/debian trixie/main amd64 python3-freetype all 2.4.0-1 [80.3 kB] Get: 125 http://deb.debian.org/debian trixie/main amd64 python3-rlpycairo all 0.3.0-3 [9904 B] Get: 126 http://deb.debian.org/debian trixie/main amd64 python3-reportlab all 4.2.0-2 [1149 kB] Get: 127 http://deb.debian.org/debian trixie/main amd64 xml-core all 0.19 [20.1 kB] Get: 128 http://deb.debian.org/debian trixie/main amd64 w3c-sgml-lib all 1.3-3 [273 kB] Get: 129 http://deb.debian.org/debian trixie/main amd64 python3-biopython amd64 1.83+dfsg1-2 [1634 kB] Get: 130 http://deb.debian.org/debian trixie/main amd64 python3-certifi all 2023.11.17-1 [155 kB] Get: 131 http://deb.debian.org/debian trixie/main amd64 python3-charset-normalizer all 3.3.2-1 [51.6 kB] Get: 132 http://deb.debian.org/debian trixie/main amd64 python3-decorator all 5.1.1-5 [15.1 kB] Get: 133 http://deb.debian.org/debian trixie/main amd64 python3-idna all 3.6-2 [37.0 kB] Get: 134 http://deb.debian.org/debian trixie/main amd64 python3-iniconfig all 1.1.1-2 [6396 B] Get: 135 http://deb.debian.org/debian trixie/main amd64 python3-joblib all 1.3.2-2 [218 kB] Get: 136 http://deb.debian.org/debian trixie/main amd64 python3-packaging all 24.0-1 [45.5 kB] Get: 137 http://deb.debian.org/debian trixie/main amd64 python3-pluggy all 1.5.0-1 [26.9 kB] Get: 138 http://deb.debian.org/debian trixie/main amd64 python3-pysam amd64 0.22.0+ds-1+b2 [4646 kB] Get: 139 http://deb.debian.org/debian trixie/main amd64 python3-pytest all 7.4.4-3 [239 kB] Get: 140 http://deb.debian.org/debian trixie/main amd64 python3-six all 1.16.0-6 [16.3 kB] Get: 141 http://deb.debian.org/debian trixie/main amd64 python3-urllib3 all 1.26.18-2 [116 kB] Get: 142 http://deb.debian.org/debian trixie/main amd64 python3-requests all 2.31.0+dfsg-1 [68.6 kB] Get: 143 http://deb.debian.org/debian trixie/main amd64 python3-scipy amd64 1.11.4-6 [19.5 MB] Fetched 97.4 MB in 1s (98.3 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libpython3.11-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 ... 19699 files and directories currently installed.) Preparing to unpack .../libpython3.11-minimal_3.11.9-1_amd64.deb ... Unpacking libpython3.11-minimal:amd64 (3.11.9-1) ... Selecting previously unselected package libexpat1:amd64. Preparing to unpack .../libexpat1_2.6.2-1_amd64.deb ... Unpacking libexpat1:amd64 (2.6.2-1) ... Selecting previously unselected package python3.11-minimal. Preparing to unpack .../python3.11-minimal_3.11.9-1_amd64.deb ... Unpacking python3.11-minimal (3.11.9-1) ... Setting up libpython3.11-minimal:amd64 (3.11.9-1) ... Setting up libexpat1:amd64 (2.6.2-1) ... Setting up python3.11-minimal (3.11.9-1) ... 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 ... 20015 files and directories currently installed.) Preparing to unpack .../0-python3-minimal_3.11.8-1_amd64.deb ... Unpacking python3-minimal (3.11.8-1) ... Selecting previously unselected package media-types. Preparing to unpack .../1-media-types_10.1.0_all.deb ... Unpacking media-types (10.1.0) ... Selecting previously unselected package netbase. Preparing to unpack .../2-netbase_6.4_all.deb ... Unpacking netbase (6.4) ... Selecting previously unselected package tzdata. Preparing to unpack .../3-tzdata_2024a-4_all.deb ... Unpacking tzdata (2024a-4) ... Selecting previously unselected package readline-common. Preparing to unpack .../4-readline-common_8.2-4_all.deb ... Unpacking readline-common (8.2-4) ... Selecting previously unselected package libreadline8t64:amd64. Preparing to unpack .../5-libreadline8t64_8.2-4_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 (8.2-4) ... Selecting previously unselected package libpython3.11-stdlib:amd64. Preparing to unpack .../6-libpython3.11-stdlib_3.11.9-1_amd64.deb ... Unpacking libpython3.11-stdlib:amd64 (3.11.9-1) ... Selecting previously unselected package python3.11. Preparing to unpack .../7-python3.11_3.11.9-1_amd64.deb ... Unpacking python3.11 (3.11.9-1) ... Selecting previously unselected package libpython3-stdlib:amd64. Preparing to unpack .../8-libpython3-stdlib_3.11.8-1_amd64.deb ... Unpacking libpython3-stdlib:amd64 (3.11.8-1) ... Setting up python3-minimal (3.11.8-1) ... 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 ... 21007 files and directories currently installed.) Preparing to unpack .../000-python3_3.11.8-1_amd64.deb ... Unpacking python3 (3.11.8-1) ... Selecting previously unselected package libpython3.12-minimal:amd64. Preparing to unpack .../001-libpython3.12-minimal_3.12.3-1_amd64.deb ... Unpacking libpython3.12-minimal:amd64 (3.12.3-1) ... Selecting previously unselected package python3.12-minimal. Preparing to unpack .../002-python3.12-minimal_3.12.3-1_amd64.deb ... Unpacking python3.12-minimal (3.12.3-1) ... Selecting previously unselected package sgml-base. Preparing to unpack .../003-sgml-base_1.31_all.deb ... Unpacking sgml-base (1.31) ... Selecting previously unselected package libproc2-0:amd64. Preparing to unpack .../004-libproc2-0_2%3a4.0.4-4_amd64.deb ... Unpacking libproc2-0:amd64 (2:4.0.4-4) ... Selecting previously unselected package procps. Preparing to unpack .../005-procps_2%3a4.0.4-4_amd64.deb ... Unpacking procps (2:4.0.4-4) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../006-sensible-utils_0.0.22_all.deb ... Unpacking sensible-utils (0.0.22) ... Selecting previously unselected package openssl. 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Preparing to unpack .../013-libuchardet0_0.0.8-1+b1_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.8-1+b1) ... Selecting previously unselected package groff-base. Preparing to unpack .../014-groff-base_1.23.0-4_amd64.deb ... Unpacking groff-base (1.23.0-4) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../015-bsdextrautils_2.40-8_amd64.deb ... Unpacking bsdextrautils (2.40-8) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../016-libpipeline1_1.5.7-2_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.7-2) ... Selecting previously unselected package man-db. Preparing to unpack .../017-man-db_2.12.1-1_amd64.deb ... Unpacking man-db (2.12.1-1) ... Selecting previously unselected package m4. Preparing to unpack .../018-m4_1.4.19-4_amd64.deb ... Unpacking m4 (1.4.19-4) ... Selecting previously unselected package autoconf. Preparing to unpack .../019-autoconf_2.71-3_all.deb ... Unpacking autoconf (2.71-3) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../020-autotools-dev_20220109.1_all.deb ... Unpacking autotools-dev (20220109.1) ... Selecting previously unselected package automake. Preparing to unpack .../021-automake_1%3a1.16.5-1.3_all.deb ... Unpacking automake (1:1.16.5-1.3) ... Selecting previously unselected package autopoint. Preparing to unpack .../022-autopoint_0.21-14_all.deb ... Unpacking autopoint (0.21-14) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../023-libdebhelper-perl_13.15.3_all.deb ... Unpacking libdebhelper-perl (13.15.3) ... Selecting previously unselected package libtool. Preparing to unpack .../024-libtool_2.4.7-7_all.deb ... Unpacking libtool (2.4.7-7) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../025-dh-autoreconf_20_all.deb ... Unpacking dh-autoreconf (20) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../026-libarchive-zip-perl_1.68-1_all.deb ... Unpacking libarchive-zip-perl (1.68-1) ... Selecting previously unselected package libsub-override-perl. Preparing to unpack .../027-libsub-override-perl_0.10-1_all.deb ... Unpacking libsub-override-perl (0.10-1) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../028-libfile-stripnondeterminism-perl_1.13.1-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.13.1-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../029-dh-strip-nondeterminism_1.13.1-1_all.deb ... Unpacking dh-strip-nondeterminism (1.13.1-1) ... Selecting previously unselected package libelf1t64:amd64. Preparing to unpack .../030-libelf1t64_0.191-1+b1_amd64.deb ... Unpacking libelf1t64:amd64 (0.191-1+b1) ... Selecting previously unselected package dwz. Preparing to unpack .../031-dwz_0.15-1+b1_amd64.deb ... Unpacking dwz (0.15-1+b1) ... Selecting previously unselected package libicu72:amd64. Preparing to unpack .../032-libicu72_72.1-4+b1_amd64.deb ... Unpacking libicu72:amd64 (72.1-4+b1) ... Selecting previously unselected package libxml2:amd64. Preparing to unpack .../033-libxml2_2.9.14+dfsg-1.3+b3_amd64.deb ... Unpacking libxml2:amd64 (2.9.14+dfsg-1.3+b3) ... Selecting previously unselected package gettext. Preparing to unpack .../034-gettext_0.21-14+b1_amd64.deb ... Unpacking gettext (0.21-14+b1) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../035-intltool-debian_0.35.0+20060710.6_all.deb ... Unpacking intltool-debian (0.35.0+20060710.6) ... Selecting previously unselected package po-debconf. Preparing to unpack .../036-po-debconf_1.0.21+nmu1_all.deb ... Unpacking po-debconf (1.0.21+nmu1) ... Selecting previously unselected package debhelper. Preparing to unpack .../037-debhelper_13.15.3_all.deb ... Unpacking debhelper (13.15.3) ... 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Unpacking python3-scipy (1.11.4-6) ... Setting up libhtscodecs2:amd64 (1.6.0-1+b1) ... Setting up media-types (10.1.0) ... Setting up libpipeline1:amd64 (1.5.7-2) ... Setting up libgraphite2-3:amd64 (1.3.14-2) ... Setting up liblcms2-2:amd64 (2.14-2+b1) ... Setting up libpixman-1-0:amd64 (0.42.2-1+b1) ... Setting up libsharpyuv0:amd64 (1.4.0-0.1) ... Setting up libxau6:amd64 (1:1.0.9-1+b1) ... Setting up libkeyutils1:amd64 (1.6.3-3) ... Setting up libicu72:amd64 (72.1-4+b1) ... Setting up liblerc4:amd64 (4.0.0+ds-4+b1) ... Setting up bsdextrautils (2.40-8) ... Setting up libmagic-mgc (1:5.45-3) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libdebhelper-perl (13.15.3) ... Setting up libbrotli1:amd64 (1.1.0-2+b3) ... Setting up libmagic1t64:amd64 (1:5.45-3) ... Setting up libpython3.12-minimal:amd64 (3.12.3-1) ... Setting up x11-common (1:7.7+23) ... invoke-rc.d: could not determine current runlevel Setting up X socket directories... /tmp/.X11-unix /tmp/.ICE-unix. Setting up libpsl5t64:amd64 (0.21.2-1.1) ... Setting up libnghttp2-14:amd64 (1.61.0-1+b1) ... Setting up libdeflate0:amd64 (1.20-1) ... Setting up gettext-base (0.21-14+b1) ... Setting up m4 (1.4.19-4) ... Setting up libcom-err2:amd64 (1.47.1~rc2-1) ... Setting up file (1:5.45-3) ... Setting up libjbig0:amd64 (2.1-6.1+b1) ... Setting up libelf1t64:amd64 (0.191-1+b1) ... Setting up libkrb5support0:amd64 (1.20.1-6+b1) ... Setting up libsasl2-modules-db:amd64 (2.1.28+dfsg1-6) ... Setting up tzdata (2024a-4) ... Current default time zone: 'Etc/UTC' Local time is now: Tue Jun 17 13:40:13 UTC 2025. Universal Time is now: Tue Jun 17 13:40:13 UTC 2025. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up libfontenc1:amd64 (1:1.1.8-1) ... Setting up autotools-dev (20220109.1) ... Setting up libglib2.0-0t64:amd64 (2.80.2-1) ... No schema files found: doing nothing. Setting up libblas3:amd64 (3.12.0-3) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/x86_64-linux-gnu/libblas.so.3 (libblas.so.3-x86_64-linux-gnu) in auto mode Setting up libjpeg62-turbo:amd64 (1:2.1.5-3) ... Setting up libx11-data (2:1.8.7-1) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b4) ... Setting up xfonts-encodings (1:1.0.4-2.2) ... Setting up libfribidi0:amd64 (1.0.13-3+b1) ... Setting up libimagequant0:amd64 (2.18.0-1+b1) ... Setting up libproc2-0:amd64 (2:4.0.4-4) ... Setting up fonts-dejavu-mono (2.37-8) ... Setting up libpng16-16t64:amd64 (1.6.43-5) ... Setting up autopoint (0.21-14) ... Setting up fonts-dejavu-core (2.37-8) ... Setting up libk5crypto3:amd64 (1.20.1-6+b1) ... Setting up libsasl2-2:amd64 (2.1.28+dfsg1-6) ... Setting up libgfortran5:amd64 (14-20240330-1) ... Setting up autoconf (2.71-3) ... Setting up libwebp7:amd64 (1.4.0-0.1) ... Setting up dwz (0.15-1+b1) ... Setting up sensible-utils (0.0.22) ... Setting up libtiff6:amd64 (4.5.1+git230720-4) ... Setting up libuchardet0:amd64 (0.0.8-1+b1) ... Setting up procps (2:4.0.4-4) ... Setting up libopenjp2-7:amd64 (2.5.0-2+b3) ... Setting up libsub-override-perl (0.10-1) ... Setting up netbase (6.4) ... Setting up sgml-base (1.31) ... Setting up libkrb5-3:amd64 (1.20.1-6+b1) ... Setting up libssh2-1t64:amd64 (1.11.0-4.1+b2) ... Setting up openssl (3.2.1-3) ... Setting up libwebpmux3:amd64 (1.4.0-0.1) ... Setting up libbsd0:amd64 (0.12.2-1) ... Setting up readline-common (8.2-4) ... Setting up libxml2:amd64 (2.9.14+dfsg-1.3+b3) ... Setting up automake (1:1.16.5-1.3) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.13.1-1) ... Setting up python3.12-minimal (3.12.3-1) ... Setting up libxdmcp6:amd64 (1:1.1.2-3+b1) ... Setting up liblapack3:amd64 (3.12.0-3) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/x86_64-linux-gnu/liblapack.so.3 (liblapack.so.3-x86_64-linux-gnu) in auto mode Setting up libxcb1:amd64 (1.15-1) ... Setting up gettext (0.21-14+b1) ... Setting up libtool (2.4.7-7) ... Setting up libxcb-render0:amd64 (1.15-1) ... Setting up fontconfig-config (2.15.0-1.1) ... Setting up libwebpdemux2:amd64 (1.4.0-0.1) ... Setting up libxcb-shm0:amd64 (1.15-1) ... Setting up libldap-2.5-0:amd64 (2.5.17+dfsg-1) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up ca-certificates (20240203) ... Updating certificates in /etc/ssl/certs... 146 added, 0 removed; done. Setting up libfreetype6:amd64 (2.13.2+dfsg-1+b4) ... Setting up libgssapi-krb5-2:amd64 (1.20.1-6+b1) ... Setting up libreadline8t64:amd64 (8.2-4) ... Setting up dh-strip-nondeterminism (1.13.1-1) ... Setting up groff-base (1.23.0-4) ... Setting up xml-core (0.19) ... Setting up libx11-6:amd64 (2:1.8.7-1+b1) ... Setting up libharfbuzz0b:amd64 (8.3.0-2+b1) ... Setting up libfontconfig1:amd64 (2.15.0-1.1) ... Setting up liblbfgsb0:amd64 (3.0+dfsg.4-1+b1) ... Setting up libpython3.12-stdlib:amd64 (3.12.3-1) ... Setting up libxrender1:amd64 (1:0.9.10-1.1+b1) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libpython3.11-stdlib:amd64 (3.11.9-1) ... Setting up python3.12 (3.12.3-1) ... Setting up libcurl3t64-gnutls:amd64 (8.7.1-5) ... Setting up libxext6:amd64 (2:1.3.4-1+b1) ... Setting up xfonts-utils (1:7.7+6) ... Setting up man-db (2.12.1-1) ... Not building database; man-db/auto-update is not 'true'. Setting up libcairo2:amd64 (1.18.0-3+b1) ... Setting up libraqm0:amd64 (0.10.1-1+b1) ... Setting up libhts3t64:amd64 (1.19+ds-1.1+b1) ... Setting up libpython3-stdlib:amd64 (3.11.8-1) ... Setting up python3.11 (3.11.9-1) ... Setting up debhelper (13.15.3) ... Setting up python3 (3.11.8-1) ... Setting up fonts-urw-base35 (20200910-8) ... Setting up python3-freetype (2.4.0-1) ... Setting up python3-six (1.16.0-6) ... Setting up python3-pil:amd64 (10.3.0-2) ... Setting up python3-decorator (5.1.1-5) ... Setting up python3-packaging (24.0-1) ... Setting up python3-certifi (2023.11.17-1) ... Setting up python3-idna (3.6-2) ... Setting up python3-urllib3 (1.26.18-2) ... Setting up python3-pluggy (1.5.0-1) ... Setting up python3-lib2to3 (3.12.3-1) ... Setting up python3-pkg-resources (68.1.2-2) ... Setting up python3-distutils (3.12.3-1) ... python3.12: can't get files for byte-compilation Setting up python3-iniconfig (1.1.1-2) ... Setting up python3-pysam (0.22.0+ds-1+b2) ... Setting up python3-cairo (1.26.0-1) ... Setting up python3-setuptools (68.1.2-2) ... Setting up python3-joblib (1.3.2-2) ... Setting up python3-charset-normalizer (3.3.2-1) ... Setting up python3-pytest (7.4.4-3) ... Setting up python3-all (3.11.8-1) ... Setting up python3-chardet (5.2.0+dfsg-1) ... Setting up python3-rlpycairo (0.3.0-3) ... Setting up python3-requests (2.31.0+dfsg-1) ... Setting up python3-numpy (1:1.26.4+ds-8) ... Setting up python3-reportlab (4.2.0-2) ... Setting up dh-python (6.20240422) ... Setting up python3-scipy (1.11.4-6) ... Processing triggers for libc-bin (2.38-10) ... Processing triggers for sgml-base (1.31) ... Setting up w3c-sgml-lib (1.3-3) ... Setting up python3-biopython (1.83+dfsg1-2) ... Processing triggers for ca-certificates (20240203) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. 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/insilicoseq-2.0.1/ && 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 > ../insilicoseq_2.0.1-1_source.changes dpkg-buildpackage: info: source package insilicoseq dpkg-buildpackage: info: source version 2.0.1-1 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 LC_ALL=C.UTF-8 dh clean --buildsystem=pybuild dh_auto_clean -O--buildsystem=pybuild I: pybuild base:311: python3.12 setup.py clean running clean removing '/build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.12_insilicoseq/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 I: pybuild base:311: python3.11 setup.py clean running clean removing '/build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.11_insilicoseq/build' (and everything under it) 'build/bdist.linux-x86_64' does not exist -- can't clean it 'build/scripts-3.11' does not exist -- can't clean it dh_autoreconf_clean -O--buildsystem=pybuild dh_clean -O--buildsystem=pybuild debian/rules binary LC_ALL=C.UTF-8 dh binary --buildsystem=pybuild dh_update_autotools_config -O--buildsystem=pybuild dh_autoreconf -O--buildsystem=pybuild dh_auto_configure -O--buildsystem=pybuild I: pybuild base:311: python3.12 setup.py config running config I: pybuild base:311: python3.11 setup.py config running config dh_auto_build -O--buildsystem=pybuild I: pybuild base:311: /usr/bin/python3.12 setup.py build running build running build_py creating /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.12_insilicoseq/build/iss copying iss/download.py -> /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.12_insilicoseq/build/iss copying iss/version.py -> /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.12_insilicoseq/build/iss copying iss/__main__.py -> /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.12_insilicoseq/build/iss copying iss/app.py -> /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.12_insilicoseq/build/iss copying iss/modeller.py -> /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.12_insilicoseq/build/iss copying iss/bam.py -> /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.12_insilicoseq/build/iss copying iss/generator.py -> /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.12_insilicoseq/build/iss copying iss/__init__.py -> /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.12_insilicoseq/build/iss copying iss/util.py -> /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.12_insilicoseq/build/iss copying iss/abundance.py -> /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.12_insilicoseq/build/iss creating /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.12_insilicoseq/build/iss/test copying iss/test/test_generator.py -> /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.12_insilicoseq/build/iss/test copying iss/test/test_abundance.py -> /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.12_insilicoseq/build/iss/test copying iss/test/test_error_model.py -> /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.12_insilicoseq/build/iss/test copying iss/test/test_download.py -> /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.12_insilicoseq/build/iss/test copying iss/test/test_util.py -> /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.12_insilicoseq/build/iss/test copying iss/test/test_modeller.py -> /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.12_insilicoseq/build/iss/test copying iss/test/__init__.py -> /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.12_insilicoseq/build/iss/test copying iss/test/test_bam.py -> /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.12_insilicoseq/build/iss/test creating /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.12_insilicoseq/build/iss/error_models copying iss/error_models/basic.py -> /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.12_insilicoseq/build/iss/error_models copying iss/error_models/__init__.py -> /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.12_insilicoseq/build/iss/error_models copying iss/error_models/kde.py -> /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.12_insilicoseq/build/iss/error_models copying iss/error_models/perfect.py -> /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.12_insilicoseq/build/iss/error_models running egg_info creating InSilicoSeq.egg-info writing InSilicoSeq.egg-info/PKG-INFO writing dependency_links to InSilicoSeq.egg-info/dependency_links.txt writing entry points to InSilicoSeq.egg-info/entry_points.txt writing requirements to InSilicoSeq.egg-info/requires.txt writing top-level names to InSilicoSeq.egg-info/top_level.txt writing manifest file 'InSilicoSeq.egg-info/SOURCES.txt' reading manifest file 'InSilicoSeq.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' adding license file 'LICENSE' writing manifest file 'InSilicoSeq.egg-info/SOURCES.txt' /usr/lib/python3/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'iss.profiles' is absent from the `packages` configuration. !! ******************************************************************************** ############################ # Package would be ignored # ############################ Python recognizes 'iss.profiles' as an importable package[^1], but it is absent from setuptools' `packages` configuration. This leads to an ambiguous overall configuration. If you want to distribute this package, please make sure that 'iss.profiles' is explicitly added to the `packages` configuration field. Alternatively, you can also rely on setuptools' discovery methods (for example by using `find_namespace_packages(...)`/`find_namespace:` instead of `find_packages(...)`/`find:`). You can read more about "package discovery" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html If you don't want 'iss.profiles' to be distributed and are already explicitly excluding 'iss.profiles' via `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, you can try to use `exclude_package_data`, or `include-package-data=False` in combination with a more fine grained `package-data` configuration. You can read more about "package data files" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/datafiles.html [^1]: For Python, any directory (with suitable naming) can be imported, even if it does not contain any `.py` files. On the other hand, currently there is no concept of package data directory, all directories are treated like packages. ******************************************************************************** !! check.warn(importable) creating /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.12_insilicoseq/build/iss/profiles copying iss/profiles/HiSeq -> /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.12_insilicoseq/build/iss/profiles copying iss/profiles/MiSeq -> /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.12_insilicoseq/build/iss/profiles copying iss/profiles/NovaSeq -> /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.12_insilicoseq/build/iss/profiles copying iss/profiles/miSeq_0.npz -> /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.12_insilicoseq/build/iss/profiles copying iss/profiles/miSeq_20.npz -> /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.12_insilicoseq/build/iss/profiles copying iss/profiles/miSeq_24.npz -> /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.12_insilicoseq/build/iss/profiles copying iss/profiles/miSeq_28.npz -> /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.12_insilicoseq/build/iss/profiles copying iss/profiles/miSeq_32.npz -> /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.12_insilicoseq/build/iss/profiles copying iss/profiles/miSeq_36.npz -> /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.12_insilicoseq/build/iss/profiles copying iss/profiles/nextSeq.npz -> /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.12_insilicoseq/build/iss/profiles I: pybuild base:311: /usr/bin/python3 setup.py build running build running build_py creating /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.11_insilicoseq/build/iss copying iss/download.py -> /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.11_insilicoseq/build/iss copying iss/version.py -> /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.11_insilicoseq/build/iss copying iss/__main__.py -> /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.11_insilicoseq/build/iss copying iss/app.py -> /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.11_insilicoseq/build/iss copying iss/modeller.py -> /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.11_insilicoseq/build/iss copying iss/bam.py -> /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.11_insilicoseq/build/iss copying iss/generator.py -> /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.11_insilicoseq/build/iss copying iss/__init__.py -> /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.11_insilicoseq/build/iss copying iss/util.py -> /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.11_insilicoseq/build/iss copying iss/abundance.py -> /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.11_insilicoseq/build/iss creating /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.11_insilicoseq/build/iss/test copying iss/test/test_generator.py -> /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.11_insilicoseq/build/iss/test copying iss/test/test_abundance.py -> /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.11_insilicoseq/build/iss/test copying iss/test/test_error_model.py -> /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.11_insilicoseq/build/iss/test copying iss/test/test_download.py -> /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.11_insilicoseq/build/iss/test copying iss/test/test_util.py -> /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.11_insilicoseq/build/iss/test copying iss/test/test_modeller.py -> /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.11_insilicoseq/build/iss/test copying iss/test/__init__.py -> /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.11_insilicoseq/build/iss/test copying iss/test/test_bam.py -> /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.11_insilicoseq/build/iss/test creating /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.11_insilicoseq/build/iss/error_models copying iss/error_models/basic.py -> /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.11_insilicoseq/build/iss/error_models copying iss/error_models/__init__.py -> /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.11_insilicoseq/build/iss/error_models copying iss/error_models/kde.py -> /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.11_insilicoseq/build/iss/error_models copying iss/error_models/perfect.py -> /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.11_insilicoseq/build/iss/error_models running egg_info writing InSilicoSeq.egg-info/PKG-INFO writing dependency_links to InSilicoSeq.egg-info/dependency_links.txt writing entry points to InSilicoSeq.egg-info/entry_points.txt writing requirements to InSilicoSeq.egg-info/requires.txt writing top-level names to InSilicoSeq.egg-info/top_level.txt reading manifest file 'InSilicoSeq.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' adding license file 'LICENSE' writing manifest file 'InSilicoSeq.egg-info/SOURCES.txt' /usr/lib/python3/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'iss.profiles' is absent from the `packages` configuration. !! ******************************************************************************** ############################ # Package would be ignored # ############################ Python recognizes 'iss.profiles' as an importable package[^1], but it is absent from setuptools' `packages` configuration. This leads to an ambiguous overall configuration. If you want to distribute this package, please make sure that 'iss.profiles' is explicitly added to the `packages` configuration field. Alternatively, you can also rely on setuptools' discovery methods (for example by using `find_namespace_packages(...)`/`find_namespace:` instead of `find_packages(...)`/`find:`). You can read more about "package discovery" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html If you don't want 'iss.profiles' to be distributed and are already explicitly excluding 'iss.profiles' via `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, you can try to use `exclude_package_data`, or `include-package-data=False` in combination with a more fine grained `package-data` configuration. You can read more about "package data files" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/datafiles.html [^1]: For Python, any directory (with suitable naming) can be imported, even if it does not contain any `.py` files. On the other hand, currently there is no concept of package data directory, all directories are treated like packages. ******************************************************************************** !! check.warn(importable) creating /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.11_insilicoseq/build/iss/profiles copying iss/profiles/HiSeq -> /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.11_insilicoseq/build/iss/profiles copying iss/profiles/MiSeq -> /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.11_insilicoseq/build/iss/profiles copying iss/profiles/NovaSeq -> /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.11_insilicoseq/build/iss/profiles copying iss/profiles/miSeq_0.npz -> /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.11_insilicoseq/build/iss/profiles copying iss/profiles/miSeq_20.npz -> /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.11_insilicoseq/build/iss/profiles copying iss/profiles/miSeq_24.npz -> /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.11_insilicoseq/build/iss/profiles copying iss/profiles/miSeq_28.npz -> /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.11_insilicoseq/build/iss/profiles copying iss/profiles/miSeq_32.npz -> /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.11_insilicoseq/build/iss/profiles copying iss/profiles/miSeq_36.npz -> /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.11_insilicoseq/build/iss/profiles copying iss/profiles/nextSeq.npz -> /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.11_insilicoseq/build/iss/profiles debian/rules override_dh_auto_test make[1]: Entering directory '/build/reproducible-path/insilicoseq-2.0.1' find /build/reproducible-path/insilicoseq-2.0.1 -name read_only.fasta| xargs chmod 0444 PYTHONPATH=/build/reproducible-path/insilicoseq-2.0.1 pytest-3 -v iss ============================= test session starts ============================== platform linux -- Python 3.11.9, pytest-7.4.4, pluggy-1.5.0 -- /usr/bin/python3 cachedir: .pytest_cache rootdir: /build/reproducible-path/insilicoseq-2.0.1 collecting ... collected 46 items iss/test/test_abundance.py::test_parsing PASSED [ 2%] iss/test/test_abundance.py::test_parsing_readcounts PASSED [ 4%] iss/test/test_abundance.py::test_parsing_empty PASSED [ 6%] iss/test/test_abundance.py::test_parsing_no_exists PASSED [ 8%] iss/test/test_abundance.py::test_parsing_bad_abundance PASSED [ 10%] iss/test/test_abundance.py::test_cov_calc PASSED [ 13%] iss/test/test_abundance.py::test_distributions PASSED [ 15%] iss/test/test_abundance.py::test_abunance_draft PASSED [ 17%] iss/test/test_abundance.py::test_coverage_scaling PASSED [ 19%] iss/test/test_bam.py::test_read_fail PASSED [ 21%] iss/test/test_bam.py::test_to_model PASSED [ 23%] iss/test/test_download.py::test_ncbi SKIPPED (Test requires Internet.) [ 26%] iss/test/test_error_model.py::test_perfect_phred PASSED [ 28%] iss/test/test_error_model.py::test_basic_phred PASSED [ 30%] iss/test/test_error_model.py::test_kde_phred PASSED [ 32%] iss/test/test_error_model.py::test_introduce_errors PASSED [ 34%] iss/test/test_error_model.py::test_mut_sequence PASSED [ 36%] iss/test/test_error_model.py::test_introduce_indels PASSED [ 39%] iss/test/test_error_model.py::test_adjust_seq_length_extend PASSED [ 41%] iss/test/test_error_model.py::test_introduce_indels_rev PASSED [ 43%] iss/test/test_error_model.py::test_bad_err_mod PASSED [ 45%] iss/test/test_generator.py::test_cleanup_fail PASSED [ 47%] iss/test/test_generator.py::test_simulate_and_save PASSED [ 50%] iss/test/test_generator.py::test_simulate_and_save_short PASSED [ 52%] iss/test/test_generator.py::test_small_input PASSED [ 54%] iss/test/test_generator.py::test_basic PASSED [ 56%] iss/test/test_generator.py::test_kde PASSED [ 58%] iss/test/test_generator.py::test_kde_short PASSED [ 60%] iss/test/test_generator.py::test_amp PASSED [ 63%] iss/test/test_modeller.py::test_kde_qualities PASSED [ 65%] iss/test/test_modeller.py::test_substitutions PASSED [ 67%] iss/test/test_modeller.py::test_indels PASSED [ 69%] iss/test/test_util.py::test_phred_conversions PASSED [ 71%] iss/test/test_util.py::test_rev_comp PASSED [ 73%] iss/test/test_util.py::test_count_records PASSED [ 76%] iss/test/test_util.py::test_count_records_empty PASSED [ 78%] iss/test/test_util.py::test_split_list PASSED [ 80%] iss/test/test_util.py::test_convert_n_reads PASSED [ 82%] iss/test/test_util.py::test_convert_n_reads_bad_not_a_number PASSED [ 84%] iss/test/test_util.py::test_convert_n_reads_bad_suffix PASSED [ 86%] iss/test/test_util.py::test_genome_file_exists PASSED [ 89%] iss/test/test_util.py::test_reservoir PASSED [ 91%] iss/test/test_util.py::test_reservoir_invalid_input PASSED [ 93%] iss/test/test_util.py::test_concatenate PASSED [ 95%] iss/test/test_util.py::test_concatenate_read_only PASSED [ 97%] iss/test/test_util.py::test_compress PASSED [100%] ======================== 45 passed, 1 skipped in 4.80s ========================= make[1]: Leaving directory '/build/reproducible-path/insilicoseq-2.0.1' create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=pybuild dh_prep -O--buildsystem=pybuild dh_auto_install --destdir=debian/insilicoseq/ -O--buildsystem=pybuild I: pybuild base:311: /usr/bin/python3.12 setup.py install --root /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq 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_py running egg_info writing InSilicoSeq.egg-info/PKG-INFO writing dependency_links to InSilicoSeq.egg-info/dependency_links.txt writing entry points to InSilicoSeq.egg-info/entry_points.txt writing requirements to InSilicoSeq.egg-info/requires.txt writing top-level names to InSilicoSeq.egg-info/top_level.txt reading manifest file 'InSilicoSeq.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' adding license file 'LICENSE' writing manifest file 'InSilicoSeq.egg-info/SOURCES.txt' /usr/lib/python3/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'iss.profiles' is absent from the `packages` configuration. !! ******************************************************************************** ############################ # Package would be ignored # ############################ Python recognizes 'iss.profiles' as an importable package[^1], but it is absent from setuptools' `packages` configuration. This leads to an ambiguous overall configuration. If you want to distribute this package, please make sure that 'iss.profiles' is explicitly added to the `packages` configuration field. Alternatively, you can also rely on setuptools' discovery methods (for example by using `find_namespace_packages(...)`/`find_namespace:` instead of `find_packages(...)`/`find:`). You can read more about "package discovery" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html If you don't want 'iss.profiles' to be distributed and are already explicitly excluding 'iss.profiles' via `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, you can try to use `exclude_package_data`, or `include-package-data=False` in combination with a more fine grained `package-data` configuration. You can read more about "package data files" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/datafiles.html [^1]: For Python, any directory (with suitable naming) can be imported, even if it does not contain any `.py` files. On the other hand, currently there is no concept of package data directory, all directories are treated like packages. ******************************************************************************** !! check.warn(importable) running install_lib creating /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr creating /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib creating /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.12 creating /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.12/dist-packages creating /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.12/dist-packages/iss copying /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.12_insilicoseq/build/iss/download.py -> /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.12/dist-packages/iss copying /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.12_insilicoseq/build/iss/version.py -> /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.12/dist-packages/iss copying /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.12_insilicoseq/build/iss/__main__.py -> /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.12/dist-packages/iss copying /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.12_insilicoseq/build/iss/app.py -> /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.12/dist-packages/iss creating /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.12/dist-packages/iss/test copying /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.12_insilicoseq/build/iss/test/test_generator.py -> /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.12/dist-packages/iss/test copying /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.12_insilicoseq/build/iss/test/test_abundance.py -> /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.12/dist-packages/iss/test copying /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.12_insilicoseq/build/iss/test/test_error_model.py -> /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.12/dist-packages/iss/test copying /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.12_insilicoseq/build/iss/test/test_download.py -> /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.12/dist-packages/iss/test copying /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.12_insilicoseq/build/iss/test/test_util.py -> /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.12/dist-packages/iss/test copying /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.12_insilicoseq/build/iss/test/test_modeller.py -> /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.12/dist-packages/iss/test copying /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.12_insilicoseq/build/iss/test/__init__.py -> /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.12/dist-packages/iss/test copying /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.12_insilicoseq/build/iss/test/test_bam.py -> /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.12/dist-packages/iss/test copying /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.12_insilicoseq/build/iss/modeller.py -> /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.12/dist-packages/iss copying /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.12_insilicoseq/build/iss/bam.py -> /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.12/dist-packages/iss copying /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.12_insilicoseq/build/iss/generator.py -> /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.12/dist-packages/iss creating /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.12/dist-packages/iss/error_models copying /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.12_insilicoseq/build/iss/error_models/basic.py -> /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.12/dist-packages/iss/error_models copying /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.12_insilicoseq/build/iss/error_models/__init__.py -> /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.12/dist-packages/iss/error_models copying /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.12_insilicoseq/build/iss/error_models/kde.py -> /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.12/dist-packages/iss/error_models copying /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.12_insilicoseq/build/iss/error_models/perfect.py -> /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.12/dist-packages/iss/error_models copying /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.12_insilicoseq/build/iss/__init__.py -> /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.12/dist-packages/iss creating /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.12/dist-packages/iss/profiles copying /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.12_insilicoseq/build/iss/profiles/HiSeq -> /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.12/dist-packages/iss/profiles copying /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.12_insilicoseq/build/iss/profiles/NovaSeq -> /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.12/dist-packages/iss/profiles copying /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.12_insilicoseq/build/iss/profiles/MiSeq -> /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.12/dist-packages/iss/profiles copying /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.12_insilicoseq/build/iss/profiles/miSeq_0.npz -> /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.12/dist-packages/iss/profiles copying /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.12_insilicoseq/build/iss/profiles/miSeq_20.npz -> /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.12/dist-packages/iss/profiles copying /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.12_insilicoseq/build/iss/profiles/miSeq_24.npz -> /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.12/dist-packages/iss/profiles copying /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.12_insilicoseq/build/iss/profiles/miSeq_36.npz -> /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.12/dist-packages/iss/profiles copying /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.12_insilicoseq/build/iss/profiles/miSeq_32.npz -> /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.12/dist-packages/iss/profiles copying /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.12_insilicoseq/build/iss/profiles/nextSeq.npz -> /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.12/dist-packages/iss/profiles copying /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.12_insilicoseq/build/iss/profiles/miSeq_28.npz -> /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.12/dist-packages/iss/profiles copying /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.12_insilicoseq/build/iss/util.py -> /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.12/dist-packages/iss copying /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.12_insilicoseq/build/iss/abundance.py -> /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.12/dist-packages/iss byte-compiling /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.12/dist-packages/iss/download.py to download.cpython-312.pyc byte-compiling /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.12/dist-packages/iss/version.py to version.cpython-312.pyc byte-compiling /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.12/dist-packages/iss/__main__.py to __main__.cpython-312.pyc byte-compiling /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.12/dist-packages/iss/app.py to app.cpython-312.pyc byte-compiling /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.12/dist-packages/iss/test/test_generator.py to test_generator.cpython-312.pyc byte-compiling /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.12/dist-packages/iss/test/test_abundance.py to test_abundance.cpython-312.pyc byte-compiling /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.12/dist-packages/iss/test/test_error_model.py to test_error_model.cpython-312.pyc byte-compiling /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.12/dist-packages/iss/test/test_download.py to test_download.cpython-312.pyc byte-compiling /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.12/dist-packages/iss/test/test_util.py to test_util.cpython-312.pyc byte-compiling /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.12/dist-packages/iss/test/test_modeller.py to test_modeller.cpython-312.pyc byte-compiling /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.12/dist-packages/iss/test/__init__.py to __init__.cpython-312.pyc byte-compiling /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.12/dist-packages/iss/test/test_bam.py to test_bam.cpython-312.pyc byte-compiling /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.12/dist-packages/iss/modeller.py to modeller.cpython-312.pyc byte-compiling /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.12/dist-packages/iss/bam.py to bam.cpython-312.pyc byte-compiling /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.12/dist-packages/iss/generator.py to generator.cpython-312.pyc byte-compiling /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.12/dist-packages/iss/error_models/basic.py to basic.cpython-312.pyc byte-compiling /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.12/dist-packages/iss/error_models/__init__.py to __init__.cpython-312.pyc byte-compiling /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.12/dist-packages/iss/error_models/kde.py to kde.cpython-312.pyc byte-compiling /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.12/dist-packages/iss/error_models/perfect.py to perfect.cpython-312.pyc byte-compiling /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.12/dist-packages/iss/__init__.py to __init__.cpython-312.pyc byte-compiling /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.12/dist-packages/iss/util.py to util.cpython-312.pyc byte-compiling /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.12/dist-packages/iss/abundance.py to abundance.cpython-312.pyc running install_egg_info Copying InSilicoSeq.egg-info to /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.12/dist-packages/InSilicoSeq-2.0.1.egg-info Skipping SOURCES.txt running install_scripts Installing iss script to /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/bin I: pybuild base:311: /usr/bin/python3 setup.py install --root /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq 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_py running egg_info writing InSilicoSeq.egg-info/PKG-INFO writing dependency_links to InSilicoSeq.egg-info/dependency_links.txt writing entry points to InSilicoSeq.egg-info/entry_points.txt writing requirements to InSilicoSeq.egg-info/requires.txt writing top-level names to InSilicoSeq.egg-info/top_level.txt reading manifest file 'InSilicoSeq.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' adding license file 'LICENSE' writing manifest file 'InSilicoSeq.egg-info/SOURCES.txt' /usr/lib/python3/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'iss.profiles' is absent from the `packages` configuration. !! ******************************************************************************** ############################ # Package would be ignored # ############################ Python recognizes 'iss.profiles' as an importable package[^1], but it is absent from setuptools' `packages` configuration. This leads to an ambiguous overall configuration. If you want to distribute this package, please make sure that 'iss.profiles' is explicitly added to the `packages` configuration field. Alternatively, you can also rely on setuptools' discovery methods (for example by using `find_namespace_packages(...)`/`find_namespace:` instead of `find_packages(...)`/`find:`). You can read more about "package discovery" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html If you don't want 'iss.profiles' to be distributed and are already explicitly excluding 'iss.profiles' via `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, you can try to use `exclude_package_data`, or `include-package-data=False` in combination with a more fine grained `package-data` configuration. You can read more about "package data files" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/datafiles.html [^1]: For Python, any directory (with suitable naming) can be imported, even if it does not contain any `.py` files. On the other hand, currently there is no concept of package data directory, all directories are treated like packages. ******************************************************************************** !! check.warn(importable) running install_lib creating /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.11 creating /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.11/dist-packages creating /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.11/dist-packages/iss copying /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.11_insilicoseq/build/iss/download.py -> /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.11/dist-packages/iss copying /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.11_insilicoseq/build/iss/version.py -> /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.11/dist-packages/iss copying /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.11_insilicoseq/build/iss/__main__.py -> /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.11/dist-packages/iss copying /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.11_insilicoseq/build/iss/app.py -> /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.11/dist-packages/iss creating /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.11/dist-packages/iss/test copying /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.11_insilicoseq/build/iss/test/test_generator.py -> /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.11/dist-packages/iss/test copying /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.11_insilicoseq/build/iss/test/test_abundance.py -> /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.11/dist-packages/iss/test copying /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.11_insilicoseq/build/iss/test/test_error_model.py -> /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.11/dist-packages/iss/test copying /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.11_insilicoseq/build/iss/test/test_download.py -> /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.11/dist-packages/iss/test copying /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.11_insilicoseq/build/iss/test/test_util.py -> /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.11/dist-packages/iss/test copying /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.11_insilicoseq/build/iss/test/test_modeller.py -> /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.11/dist-packages/iss/test copying /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.11_insilicoseq/build/iss/test/__init__.py -> /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.11/dist-packages/iss/test copying /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.11_insilicoseq/build/iss/test/test_bam.py -> /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.11/dist-packages/iss/test copying /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.11_insilicoseq/build/iss/modeller.py -> /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.11/dist-packages/iss copying /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.11_insilicoseq/build/iss/bam.py -> /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.11/dist-packages/iss copying /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.11_insilicoseq/build/iss/generator.py -> /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.11/dist-packages/iss creating /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.11/dist-packages/iss/error_models copying /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.11_insilicoseq/build/iss/error_models/basic.py -> /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.11/dist-packages/iss/error_models copying /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.11_insilicoseq/build/iss/error_models/__init__.py -> /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.11/dist-packages/iss/error_models copying /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.11_insilicoseq/build/iss/error_models/kde.py -> /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.11/dist-packages/iss/error_models copying /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.11_insilicoseq/build/iss/error_models/perfect.py -> /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.11/dist-packages/iss/error_models copying /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.11_insilicoseq/build/iss/__init__.py -> /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.11/dist-packages/iss creating /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.11/dist-packages/iss/profiles copying /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.11_insilicoseq/build/iss/profiles/HiSeq -> /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.11/dist-packages/iss/profiles copying /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.11_insilicoseq/build/iss/profiles/NovaSeq -> /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.11/dist-packages/iss/profiles copying /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.11_insilicoseq/build/iss/profiles/MiSeq -> /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.11/dist-packages/iss/profiles copying /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.11_insilicoseq/build/iss/profiles/miSeq_0.npz -> /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.11/dist-packages/iss/profiles copying /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.11_insilicoseq/build/iss/profiles/miSeq_20.npz -> /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.11/dist-packages/iss/profiles copying /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.11_insilicoseq/build/iss/profiles/miSeq_24.npz -> /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.11/dist-packages/iss/profiles copying /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.11_insilicoseq/build/iss/profiles/miSeq_36.npz -> /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.11/dist-packages/iss/profiles copying /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.11_insilicoseq/build/iss/profiles/miSeq_32.npz -> /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.11/dist-packages/iss/profiles copying /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.11_insilicoseq/build/iss/profiles/nextSeq.npz -> /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.11/dist-packages/iss/profiles copying /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.11_insilicoseq/build/iss/profiles/miSeq_28.npz -> /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.11/dist-packages/iss/profiles copying /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.11_insilicoseq/build/iss/util.py -> /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.11/dist-packages/iss copying /build/reproducible-path/insilicoseq-2.0.1/.pybuild/cpython3_3.11_insilicoseq/build/iss/abundance.py -> /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.11/dist-packages/iss byte-compiling /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.11/dist-packages/iss/download.py to download.cpython-311.pyc byte-compiling /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.11/dist-packages/iss/version.py to version.cpython-311.pyc byte-compiling /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.11/dist-packages/iss/__main__.py to __main__.cpython-311.pyc byte-compiling /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.11/dist-packages/iss/app.py to app.cpython-311.pyc byte-compiling /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.11/dist-packages/iss/test/test_generator.py to test_generator.cpython-311.pyc byte-compiling /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.11/dist-packages/iss/test/test_abundance.py to test_abundance.cpython-311.pyc byte-compiling /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.11/dist-packages/iss/test/test_error_model.py to test_error_model.cpython-311.pyc byte-compiling /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.11/dist-packages/iss/test/test_download.py to test_download.cpython-311.pyc byte-compiling /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.11/dist-packages/iss/test/test_util.py to test_util.cpython-311.pyc byte-compiling /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.11/dist-packages/iss/test/test_modeller.py to test_modeller.cpython-311.pyc byte-compiling /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.11/dist-packages/iss/test/__init__.py to __init__.cpython-311.pyc byte-compiling /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.11/dist-packages/iss/test/test_bam.py to test_bam.cpython-311.pyc byte-compiling /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.11/dist-packages/iss/modeller.py to modeller.cpython-311.pyc byte-compiling /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.11/dist-packages/iss/bam.py to bam.cpython-311.pyc byte-compiling /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.11/dist-packages/iss/generator.py to generator.cpython-311.pyc byte-compiling /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.11/dist-packages/iss/error_models/basic.py to basic.cpython-311.pyc byte-compiling /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.11/dist-packages/iss/error_models/__init__.py to __init__.cpython-311.pyc byte-compiling /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.11/dist-packages/iss/error_models/kde.py to kde.cpython-311.pyc byte-compiling /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.11/dist-packages/iss/error_models/perfect.py to perfect.cpython-311.pyc byte-compiling /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.11/dist-packages/iss/__init__.py to __init__.cpython-311.pyc byte-compiling /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.11/dist-packages/iss/util.py to util.cpython-311.pyc byte-compiling /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.11/dist-packages/iss/abundance.py to abundance.cpython-311.pyc running install_egg_info Copying InSilicoSeq.egg-info to /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/lib/python3.11/dist-packages/InSilicoSeq-2.0.1.egg-info Skipping SOURCES.txt running install_scripts Installing iss script to /build/reproducible-path/insilicoseq-2.0.1/debian/insilicoseq/usr/bin dh_installdocs -O--buildsystem=pybuild dh_installchangelogs -O--buildsystem=pybuild debian/rules override_dh_installexamples make[1]: Entering directory '/build/reproducible-path/insilicoseq-2.0.1' dh_installexamples find debian -name __pycache__ -type d | xargs rm -rf make[1]: Leaving directory '/build/reproducible-path/insilicoseq-2.0.1' dh_installman -O--buildsystem=pybuild dh_python3 -O--buildsystem=pybuild dh_installsystemduser -O--buildsystem=pybuild dh_lintian -O--buildsystem=pybuild dh_perl -O--buildsystem=pybuild dh_link -O--buildsystem=pybuild dh_strip_nondeterminism -O--buildsystem=pybuild dh_compress -O--buildsystem=pybuild debian/rules override_dh_fixperms make[1]: Entering directory '/build/reproducible-path/insilicoseq-2.0.1' dh_fixperms find debian/ -name read_only.fasta| xargs chmod 0444 make[1]: Leaving directory '/build/reproducible-path/insilicoseq-2.0.1' dh_missing -O--buildsystem=pybuild dh_installdeb -O--buildsystem=pybuild dh_gencontrol -O--buildsystem=pybuild dpkg-gencontrol: warning: Recommends field of package insilicoseq: substitution variable ${python3:Recommends} used, but is not defined dpkg-gencontrol: warning: Suggests field of package insilicoseq: substitution variable ${python3:Suggests} used, but is not defined dh_md5sums -O--buildsystem=pybuild dh_builddeb -O--buildsystem=pybuild dpkg-deb: building package 'insilicoseq' in '../insilicoseq_2.0.1-1_all.deb'. dpkg-genbuildinfo --build=binary -O../insilicoseq_2.0.1-1_amd64.buildinfo dpkg-genchanges --build=binary -O../insilicoseq_2.0.1-1_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/2757831 and its subdirectories I: Current time: Tue Jun 17 01:41:39 -12 2025 I: pbuilder-time-stamp: 1750167699 Wed May 15 07:18:42 UTC 2024 I: 1st build successful. Starting 2nd build on remote node ionos11-amd64.debian.net. Wed May 15 07:18:42 UTC 2024 I: Preparing to do remote build '2' on ionos11-amd64.debian.net. Wed May 15 07:28:54 UTC 2024 I: Deleting $TMPDIR on ionos11-amd64.debian.net. Wed May 15 07:28:55 UTC 2024 I: insilicoseq_2.0.1-1_amd64.changes: Format: 1.8 Date: Wed, 24 Apr 2024 13:27:35 +0200 Source: insilicoseq Binary: insilicoseq Architecture: all Version: 2.0.1-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Étienne Mollier Description: insilicoseq - sequencing simulator producing realistic Illumina reads Changes: insilicoseq (2.0.1-1) unstable; urgency=medium . * New upstream version 2.0.1 * d/control: declare compliance to standards version 4.7.0. Checksums-Sha1: 2cc29e03b673f71dc51e032e603798e4849312c0 4234232 insilicoseq_2.0.1-1_all.deb 5838ba302ff943c0b3a60a54de27663fe2d9539f 8524 insilicoseq_2.0.1-1_amd64.buildinfo Checksums-Sha256: 7d811ba69f10f5a7994dfd224bbf7fa0d57c72450d50ae49f645f8a19cf2af79 4234232 insilicoseq_2.0.1-1_all.deb 96c1e58767dcbca471021d4d29a6b3934c10aa9b77b8e63f0f0b585ecd23d03f 8524 insilicoseq_2.0.1-1_amd64.buildinfo Files: a40a9d27ad3a7dc2a5bde25029a00769 4234232 science optional insilicoseq_2.0.1-1_all.deb 4078b24de482d03ba215de30802dd55c 8524 science optional insilicoseq_2.0.1-1_amd64.buildinfo Wed May 15 07:28:56 UTC 2024 I: diffoscope 266 will be used to compare the two builds: Running as unit: rb-diffoscope-amd64_28-20614.service # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.ZQlhd5JZ/insilicoseq_2.0.1-1.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.ZQlhd5JZ/insilicoseq_2.0.1-1.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.ZQlhd5JZ/insilicoseq_2.0.1-1.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.ZQlhd5JZ/b1/insilicoseq_2.0.1-1_amd64.changes /srv/reproducible-results/rbuild-debian/r-b-build.ZQlhd5JZ/b2/insilicoseq_2.0.1-1_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: 0.416s) 0.416s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.058s) 0.058s 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: 765ms CPU time consumed: 764ms Wed May 15 07:28:58 UTC 2024 I: diffoscope 266 found no differences in the changes files, and a .buildinfo file also exists. Wed May 15 07:28:58 UTC 2024 I: insilicoseq from trixie built successfully and reproducibly on amd64. Wed May 15 07:28:59 UTC 2024 I: Submitting .buildinfo files to external archives: Wed May 15 07:28:59 UTC 2024 I: Submitting 12K b1/insilicoseq_2.0.1-1_amd64.buildinfo.asc Wed May 15 07:29:00 UTC 2024 I: Submitting 12K b2/insilicoseq_2.0.1-1_amd64.buildinfo.asc Wed May 15 07:29:00 UTC 2024 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Wed May 15 07:29:00 UTC 2024 I: Done submitting .buildinfo files. Wed May 15 07:29:00 UTC 2024 I: Removing signed insilicoseq_2.0.1-1_amd64.buildinfo.asc files: removed './b1/insilicoseq_2.0.1-1_amd64.buildinfo.asc' removed './b2/insilicoseq_2.0.1-1_amd64.buildinfo.asc'