Thu Nov 14 07:25:11 UTC 2024 I: starting to build mirtop/unstable/amd64 on jenkins on '2024-11-14 07:24' Thu Nov 14 07:25:11 UTC 2024 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/amd64_35/34539/console.log Thu Nov 14 07:25:11 UTC 2024 I: Downloading source for unstable/mirtop=0.4.28-1 --2024-11-14 07:25:12-- http://deb.debian.org/debian/pool/main/m/mirtop/mirtop_0.4.28-1.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2340 (2.3K) [text/prs.lines.tag] Saving to: ‘mirtop_0.4.28-1.dsc’ 0K .. 100% 300M=0s 2024-11-14 07:25:12 (300 MB/s) - ‘mirtop_0.4.28-1.dsc’ saved [2340/2340] Thu Nov 14 07:25:12 UTC 2024 I: mirtop_0.4.28-1.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: mirtop Binary: python3-mirtop, mirtop Architecture: all Version: 0.4.28-1 Maintainer: Debian Med Packaging Team Uploaders: Steffen Moeller , Karolis Kalantojus Homepage: https://github.com/miRTop/mirtop Standards-Version: 4.6.2 Vcs-Browser: https://salsa.debian.org/med-team/mirtop Vcs-Git: https://salsa.debian.org/med-team/mirtop.git Testsuite: autopkgtest, autopkgtest-pkg-python Testsuite-Triggers: bedtools, python3-all, python3-pytest, samtools, seqan-apps Build-Depends: debhelper-compat (= 13), dh-sequence-python3, python3-all, python3-setuptools, python3-six, python3-sphinx, python3-recommonmark, python3-pysam, python3-pybedtools, python3-pandas, python3-biopython Package-List: mirtop deb science optional arch=all python3-mirtop deb python optional arch=all Checksums-Sha1: 2d5b8583abcdfed302f55bcc869fa5d82e8bd219 718490 mirtop_0.4.28.orig.tar.gz b9ec1efd4030d6730f69b64bba6570ef369c4e4b 10360 mirtop_0.4.28-1.debian.tar.xz Checksums-Sha256: 1937ee0e90dd8f00071ebd8f4449709367396bdeb8236dc831122141717438d6 718490 mirtop_0.4.28.orig.tar.gz 1459c9ee961594396e32a4488c4564ba06395bf5c6da8b9810a8a40455a2a9e4 10360 mirtop_0.4.28-1.debian.tar.xz Files: 2369d23dd4b5427589e2bb53dd083cd7 718490 mirtop_0.4.28.orig.tar.gz a5440595af9507e6f8d83cd812917e22 10360 mirtop_0.4.28-1.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCgAvFiEEj23hBDd/OxHnQXSHMfMURUShdBoFAmcKewwRHHRjaGV0QGRl Ymlhbi5vcmcACgkQMfMURUShdBpwzhAAk4RsmewgDVgQCZacJjezb1uhFMsC/oHg XZZV5fgiUi+F31uLZjhd/fir8WJ2dMYeGevvdb72sJQAANw9GL8mlwdP0MmkF++6 Nspd8b9hR/apl8fBMnT+XK9szhIGq/NnK6J0wCEXOdjMp9uv1UexEv3DdJc4F6WZ PNqJiMZR0yUdc4gzPMDmNOyxCHII0emD4vLGl1g6jCbHIDKTwfAhyZ+AGjsDts74 NX9col4hz/N3dXWuqVN33AA7pXmBQG4kOTY8We9Ijveb+dT7tUXra2Puicg8J45V +m4KutdqHvfBtG2qyFOp4bGHA2yru22PCLPdjIDOumhAWgwF+y54Cujt7oxeSjkz LgNSTGrIizrFbKgoj2FpyUIcKhwUp86lv1s5UWBCQEYBLgcjLZ8qW5f1ONFxrvRK nSYMY3SrGzhXHaWLZ4s3E8TFi6srNr5MlA4FB+YYYwMvS/ZClbnMdds75kj7M0Ll pqQwNuY3XU0o7JOqFrnNHmJMq7dJhVwFFjV7l/a/roc72goKCbXmVApDUew2mvaM Uf6w1rjb1vG5GQpmaIeRxtfiZf5RSxc9ts1L0BI7AqAJbZ7jv5uzNyg1UAyxOfOW BjgUd9SkerB1HyVzJD/wBFrOqeRM8lwP1frWe/9eaPEncButXmcjWf1nRtcyViSz nFUbifGXNP4= =3eiw -----END PGP SIGNATURE----- Thu Nov 14 07:25:12 UTC 2024 I: Checking whether the package is not for us Thu Nov 14 07:25:12 UTC 2024 I: Starting 1st build on remote node infom01-amd64.debian.net. Thu Nov 14 07:25:12 UTC 2024 I: Preparing to do remote build '1' on infom01-amd64.debian.net. Thu Nov 14 07:27:52 UTC 2024 I: Deleting $TMPDIR on infom01-amd64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Wed Nov 13 19:25:14 -12 2024 I: pbuilder-time-stamp: 1731569114 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [mirtop_0.4.28-1.dsc] I: copying [./mirtop_0.4.28.orig.tar.gz] I: copying [./mirtop_0.4.28-1.debian.tar.xz] I: Extracting source gpgv: Signature made Sat Oct 12 13:35:08 2024 gpgv: using RSA key 8F6DE104377F3B11E741748731F3144544A1741A gpgv: issuer "tchet@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./mirtop_0.4.28-1.dsc: no acceptable signature found dpkg-source: info: extracting mirtop in mirtop-0.4.28 dpkg-source: info: unpacking mirtop_0.4.28.orig.tar.gz dpkg-source: info: unpacking mirtop_0.4.28-1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying spelling dpkg-source: info: applying fix-circular-import.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/1873671/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build/reproducible-path' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='amd64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 ' DISTRIBUTION='unstable' HOME='/root' HOST_ARCH='amd64' IFS=' ' INVOCATION_ID='9874de840db343979d0aeef748361cec' 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='1873671' 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.R4UFKVFz/pbuilderrc_WdK4 --distribution unstable --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.R4UFKVFz/b1 --logfile b1/build.log mirtop_0.4.28-1.dsc' SUDO_GID='109' SUDO_UID='104' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' I: uname -a Linux infom01-amd64 6.1.0-27-cloud-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.115-1 (2024-11-01) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Aug 4 21:30 /bin -> usr/bin I: user script /srv/workspace/pbuilder/1873671/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-all, python3-setuptools, python3-six, python3-sphinx, python3-recommonmark, python3-pysam, python3-pybedtools, python3-pandas, python3-biopython dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19969 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-all; however: Package python3-all is not installed. pbuilder-satisfydepends-dummy depends on python3-setuptools; however: Package python3-setuptools is not installed. pbuilder-satisfydepends-dummy depends on python3-six; however: Package python3-six is not installed. pbuilder-satisfydepends-dummy depends on python3-sphinx; however: Package python3-sphinx is not installed. pbuilder-satisfydepends-dummy depends on python3-recommonmark; however: Package python3-recommonmark is not installed. pbuilder-satisfydepends-dummy depends on python3-pysam; however: Package python3-pysam is not installed. pbuilder-satisfydepends-dummy depends on python3-pybedtools; however: Package python3-pybedtools is not installed. pbuilder-satisfydepends-dummy depends on python3-pandas; however: Package python3-pandas is not installed. pbuilder-satisfydepends-dummy depends on python3-biopython; however: Package python3-biopython 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} docutils-common{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} 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} libjs-jquery{a} libjs-sphinxdoc{a} libjs-underscore{a} libjson-perl{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} liblapack3{a} liblcms2-2{a} libldap-2.5-0{a} liblerc4{a} libmagic-mgc{a} libmagic1t64{a} libnghttp2-14{a} libnghttp3-9{a} libngtcp2-16{a} libngtcp2-crypto-gnutls8{a} libnsl2{a} libopenjp2-7{a} libpipeline1{a} libpixman-1-0{a} libpng16-16t64{a} libpsl5t64{a} libpython3-stdlib{a} libpython3.12-minimal{a} libpython3.12-stdlib{a} libpython3.13-minimal{a} libpython3.13-stdlib{a} libraqm0{a} libreadline8t64{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsharpyuv0{a} libssh2-1t64{a} libtiff6{a} libtirpc-common{a} libtirpc3t64{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} python-babel-localedata{a} python3{a} python3-alabaster{a} python3-all{a} python3-autocommand{a} python3-babel{a} python3-biopython{a} python3-cairo{a} python3-certifi{a} python3-chardet{a} python3-charset-normalizer{a} python3-commonmark{a} python3-dateutil{a} python3-defusedxml{a} python3-docutils{a} python3-freetype{a} python3-idna{a} python3-imagesize{a} python3-inflect{a} python3-jaraco.context{a} python3-jaraco.functools{a} python3-jaraco.text{a} python3-jinja2{a} python3-markupsafe{a} python3-minimal{a} python3-more-itertools{a} python3-numpy{a} python3-packaging{a} python3-pandas{a} python3-pandas-lib{a} python3-pil{a} python3-pkg-resources{a} python3-pybedtools{a} python3-pygments{a} python3-pysam{a} python3-recommonmark{a} python3-reportlab{a} python3-requests{a} python3-rlpycairo{a} python3-roman{a} python3-setuptools{a} python3-six{a} python3-snowballstemmer{a} python3-sphinx{a} python3-typeguard{a} python3-typing-extensions{a} python3-tz{a} python3-urllib3{a} python3-zipp{a} python3.12{a} python3.12-minimal{a} python3.13{a} python3.13-minimal{a} readline-common{a} sensible-utils{a} sgml-base{a} sphinx-common{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 javascript-common krb5-locales libarchive-cpio-perl libglib2.0-data libjson-xs-perl libldap-common libltdl-dev libmail-sendmail-perl libpaper-utils libsasl2-modules lynx ncbi-blast+ publicsuffix python-biopython-doc python3-bottleneck python3-bs4 python3-html5lib python3-lxml python3-matplotlib python3-numba python3-numexpr python3-odf python3-olefile python3-openpyxl python3-scipy python3-tables shared-mime-info wget xdg-user-dirs 0 packages upgraded, 170 newly installed, 0 to remove and 0 not upgraded. Need to get 103 MB of archives. After unpacking 392 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian unstable/main amd64 libpython3.12-minimal amd64 3.12.7-3 [815 kB] Get: 2 http://deb.debian.org/debian unstable/main amd64 libexpat1 amd64 2.6.4-1 [106 kB] Get: 3 http://deb.debian.org/debian unstable/main amd64 python3.12-minimal amd64 3.12.7-3 [2162 kB] Get: 4 http://deb.debian.org/debian unstable/main amd64 python3-minimal amd64 3.12.7-1 [26.8 kB] Get: 5 http://deb.debian.org/debian unstable/main amd64 media-types all 10.1.0 [26.9 kB] Get: 6 http://deb.debian.org/debian unstable/main amd64 netbase all 6.4 [12.8 kB] Get: 7 http://deb.debian.org/debian unstable/main amd64 tzdata all 2024b-3 [255 kB] Get: 8 http://deb.debian.org/debian unstable/main amd64 libkrb5support0 amd64 1.21.3-3 [32.5 kB] Get: 9 http://deb.debian.org/debian unstable/main amd64 libcom-err2 amd64 1.47.1-1+b1 [23.2 kB] Get: 10 http://deb.debian.org/debian unstable/main amd64 libk5crypto3 amd64 1.21.3-3 [79.9 kB] Get: 11 http://deb.debian.org/debian unstable/main amd64 libkeyutils1 amd64 1.6.3-4 [9092 B] Get: 12 http://deb.debian.org/debian unstable/main amd64 libkrb5-3 amd64 1.21.3-3 [324 kB] Get: 13 http://deb.debian.org/debian unstable/main amd64 libgssapi-krb5-2 amd64 1.21.3-3 [136 kB] Get: 14 http://deb.debian.org/debian unstable/main amd64 libtirpc-common all 1.3.4+ds-1.3 [10.9 kB] Get: 15 http://deb.debian.org/debian unstable/main amd64 libtirpc3t64 amd64 1.3.4+ds-1.3+b1 [83.1 kB] Get: 16 http://deb.debian.org/debian unstable/main amd64 libnsl2 amd64 1.3.0-3+b3 [40.6 kB] Get: 17 http://deb.debian.org/debian unstable/main amd64 readline-common all 8.2-5 [69.3 kB] Get: 18 http://deb.debian.org/debian unstable/main amd64 libreadline8t64 amd64 8.2-5 [169 kB] Get: 19 http://deb.debian.org/debian unstable/main amd64 libpython3.12-stdlib amd64 3.12.7-3 [1966 kB] Get: 20 http://deb.debian.org/debian unstable/main amd64 python3.12 amd64 3.12.7-3 [671 kB] Get: 21 http://deb.debian.org/debian unstable/main amd64 libpython3-stdlib amd64 3.12.7-1 [9712 B] Get: 22 http://deb.debian.org/debian unstable/main amd64 python3 amd64 3.12.7-1 [27.8 kB] Get: 23 http://deb.debian.org/debian unstable/main amd64 libpython3.13-minimal amd64 3.13.0-2 [856 kB] Get: 24 http://deb.debian.org/debian unstable/main amd64 python3.13-minimal amd64 3.13.0-2 [2038 kB] Get: 25 http://deb.debian.org/debian unstable/main amd64 sgml-base all 1.31 [15.4 kB] Get: 26 http://deb.debian.org/debian unstable/main amd64 sensible-utils all 0.0.24 [24.8 kB] Get: 27 http://deb.debian.org/debian unstable/main amd64 openssl amd64 3.3.2-2 [1382 kB] Get: 28 http://deb.debian.org/debian unstable/main amd64 ca-certificates all 20240203 [158 kB] Get: 29 http://deb.debian.org/debian unstable/main amd64 libmagic-mgc amd64 1:5.45-3+b1 [314 kB] Get: 30 http://deb.debian.org/debian unstable/main amd64 libmagic1t64 amd64 1:5.45-3+b1 [108 kB] Get: 31 http://deb.debian.org/debian unstable/main amd64 file amd64 1:5.45-3+b1 [43.3 kB] Get: 32 http://deb.debian.org/debian unstable/main amd64 gettext-base amd64 0.22.5-2 [200 kB] Get: 33 http://deb.debian.org/debian unstable/main amd64 libuchardet0 amd64 0.0.8-1+b2 [68.9 kB] Get: 34 http://deb.debian.org/debian unstable/main amd64 groff-base amd64 1.23.0-5 [1181 kB] Get: 35 http://deb.debian.org/debian unstable/main amd64 bsdextrautils amd64 2.40.2-11 [91.5 kB] Get: 36 http://deb.debian.org/debian unstable/main amd64 libpipeline1 amd64 1.5.8-1 [42.0 kB] Get: 37 http://deb.debian.org/debian unstable/main amd64 man-db amd64 2.13.0-1 [1420 kB] Get: 38 http://deb.debian.org/debian unstable/main amd64 m4 amd64 1.4.19-4 [287 kB] Get: 39 http://deb.debian.org/debian unstable/main amd64 autoconf all 2.72-3 [493 kB] Get: 40 http://deb.debian.org/debian unstable/main amd64 autotools-dev all 20220109.1 [51.6 kB] Get: 41 http://deb.debian.org/debian unstable/main amd64 automake all 1:1.16.5-1.3 [823 kB] Get: 42 http://deb.debian.org/debian unstable/main amd64 autopoint all 0.22.5-2 [723 kB] Get: 43 http://deb.debian.org/debian unstable/main amd64 libdebhelper-perl all 13.20 [89.7 kB] Get: 44 http://deb.debian.org/debian unstable/main amd64 libtool all 2.4.7-8 [517 kB] Get: 45 http://deb.debian.org/debian unstable/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 46 http://deb.debian.org/debian unstable/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 47 http://deb.debian.org/debian unstable/main amd64 libfile-stripnondeterminism-perl all 1.14.0-1 [19.5 kB] Get: 48 http://deb.debian.org/debian unstable/main amd64 dh-strip-nondeterminism all 1.14.0-1 [8448 B] Get: 49 http://deb.debian.org/debian unstable/main amd64 libelf1t64 amd64 0.192-4 [189 kB] Get: 50 http://deb.debian.org/debian unstable/main amd64 dwz amd64 0.15-1+b1 [110 kB] Get: 51 http://deb.debian.org/debian unstable/main amd64 libicu72 amd64 72.1-5+b1 [9423 kB] Get: 52 http://deb.debian.org/debian unstable/main amd64 libxml2 amd64 2.12.7+dfsg+really2.9.14-0.2+b1 [699 kB] Get: 53 http://deb.debian.org/debian unstable/main amd64 gettext amd64 0.22.5-2 [1601 kB] Get: 54 http://deb.debian.org/debian unstable/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 55 http://deb.debian.org/debian unstable/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 56 http://deb.debian.org/debian unstable/main amd64 debhelper all 13.20 [915 kB] Get: 57 http://deb.debian.org/debian unstable/main amd64 python3-autocommand all 2.2.2-3 [13.6 kB] Get: 58 http://deb.debian.org/debian unstable/main amd64 python3-more-itertools all 10.5.0-1 [63.8 kB] Get: 59 http://deb.debian.org/debian unstable/main amd64 python3-typing-extensions all 4.12.2-2 [73.0 kB] Get: 60 http://deb.debian.org/debian unstable/main amd64 python3-typeguard all 4.4.1-1 [37.0 kB] Get: 61 http://deb.debian.org/debian unstable/main amd64 python3-inflect all 7.3.1-2 [32.4 kB] Get: 62 http://deb.debian.org/debian unstable/main amd64 python3-jaraco.context all 6.0.0-1 [7984 B] Get: 63 http://deb.debian.org/debian unstable/main amd64 python3-jaraco.functools all 4.1.0-1 [12.0 kB] Get: 64 http://deb.debian.org/debian unstable/main amd64 python3-pkg-resources all 75.2.0-1 [213 kB] Get: 65 http://deb.debian.org/debian unstable/main amd64 python3-jaraco.text all 4.0.0-1 [11.4 kB] Get: 66 http://deb.debian.org/debian unstable/main amd64 python3-zipp all 3.21.0-1 [10.6 kB] Get: 67 http://deb.debian.org/debian unstable/main amd64 python3-setuptools all 75.2.0-1 [731 kB] Get: 68 http://deb.debian.org/debian unstable/main amd64 dh-python all 6.20241024 [109 kB] Get: 69 http://deb.debian.org/debian unstable/main amd64 xml-core all 0.19 [20.1 kB] Get: 70 http://deb.debian.org/debian unstable/main amd64 docutils-common all 0.21.2+dfsg-2 [128 kB] Get: 71 http://deb.debian.org/debian unstable/main amd64 fonts-dejavu-mono all 2.37-8 [489 kB] Get: 72 http://deb.debian.org/debian unstable/main amd64 fonts-dejavu-core all 2.37-8 [840 kB] Get: 73 http://deb.debian.org/debian unstable/main amd64 libfontenc1 amd64 1:1.1.8-1+b1 [23.3 kB] Get: 74 http://deb.debian.org/debian unstable/main amd64 libbrotli1 amd64 1.1.0-2+b6 [302 kB] Get: 75 http://deb.debian.org/debian unstable/main amd64 libpng16-16t64 amd64 1.6.44-2 [280 kB] Get: 76 http://deb.debian.org/debian unstable/main amd64 libfreetype6 amd64 2.13.3+dfsg-1 [452 kB] Get: 77 http://deb.debian.org/debian unstable/main amd64 x11-common all 1:7.7+23.1 [216 kB] Get: 78 http://deb.debian.org/debian unstable/main amd64 xfonts-encodings all 1:1.0.4-2.2 [577 kB] Get: 79 http://deb.debian.org/debian unstable/main amd64 xfonts-utils amd64 1:7.7+7 [93.3 kB] Get: 80 http://deb.debian.org/debian unstable/main amd64 fonts-urw-base35 all 20200910-8 [10.8 MB] Get: 81 http://deb.debian.org/debian unstable/main amd64 fontconfig-config amd64 2.15.0-1.1+b1 [318 kB] Get: 82 http://deb.debian.org/debian unstable/main amd64 libblas3 amd64 3.12.0-3+b1 [152 kB] Get: 83 http://deb.debian.org/debian unstable/main amd64 libfontconfig1 amd64 2.15.0-1.1+b1 [391 kB] Get: 84 http://deb.debian.org/debian unstable/main amd64 libpixman-1-0 amd64 0.44.0-3 [248 kB] Get: 85 http://deb.debian.org/debian unstable/main amd64 libxau6 amd64 1:1.0.11-1 [20.4 kB] Get: 86 http://deb.debian.org/debian unstable/main amd64 libxdmcp6 amd64 1:1.1.2-3+b2 [24.4 kB] Get: 87 http://deb.debian.org/debian unstable/main amd64 libxcb1 amd64 1.17.0-2+b1 [144 kB] Get: 88 http://deb.debian.org/debian unstable/main amd64 libx11-data all 2:1.8.10-2 [337 kB] Get: 89 http://deb.debian.org/debian unstable/main amd64 libx11-6 amd64 2:1.8.10-2 [813 kB] Get: 90 http://deb.debian.org/debian unstable/main amd64 libxcb-render0 amd64 1.17.0-2+b1 [115 kB] Get: 91 http://deb.debian.org/debian unstable/main amd64 libxcb-shm0 amd64 1.17.0-2+b1 [105 kB] Get: 92 http://deb.debian.org/debian unstable/main amd64 libxext6 amd64 2:1.3.4-1+b2 [50.5 kB] Get: 93 http://deb.debian.org/debian unstable/main amd64 libxrender1 amd64 1:0.9.10-1.1+b2 [27.8 kB] Get: 94 http://deb.debian.org/debian unstable/main amd64 libcairo2 amd64 1.18.2-2 [535 kB] Get: 95 http://deb.debian.org/debian unstable/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg1-8 [19.6 kB] Get: 96 http://deb.debian.org/debian unstable/main amd64 libsasl2-2 amd64 2.1.28+dfsg1-8 [57.3 kB] Get: 97 http://deb.debian.org/debian unstable/main amd64 libldap-2.5-0 amd64 2.5.18+dfsg-3+b1 [188 kB] Get: 98 http://deb.debian.org/debian unstable/main amd64 libnghttp2-14 amd64 1.64.0-1 [75.5 kB] Get: 99 http://deb.debian.org/debian unstable/main amd64 libnghttp3-9 amd64 1.4.0-1+b1 [63.6 kB] Get: 100 http://deb.debian.org/debian unstable/main amd64 libngtcp2-16 amd64 1.6.0-1 [122 kB] Get: 101 http://deb.debian.org/debian unstable/main amd64 libngtcp2-crypto-gnutls8 amd64 1.6.0-1 [19.6 kB] Get: 102 http://deb.debian.org/debian unstable/main amd64 libpsl5t64 amd64 0.21.2-1.1+b1 [57.2 kB] Get: 103 http://deb.debian.org/debian unstable/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b5 [58.8 kB] Get: 104 http://deb.debian.org/debian unstable/main amd64 libssh2-1t64 amd64 1.11.1-1 [245 kB] Get: 105 http://deb.debian.org/debian unstable/main amd64 libcurl3t64-gnutls amd64 8.11.0-1 [359 kB] Get: 106 http://deb.debian.org/debian unstable/main amd64 libdeflate0 amd64 1.22-1 [47.3 kB] Get: 107 http://deb.debian.org/debian unstable/main amd64 libfribidi0 amd64 1.0.15-1 [71.8 kB] Get: 108 http://deb.debian.org/debian unstable/main amd64 libgfortran5 amd64 14.2.0-8 [836 kB] Get: 109 http://deb.debian.org/debian unstable/main amd64 libglib2.0-0t64 amd64 2.82.2-3 [1501 kB] Get: 110 http://deb.debian.org/debian unstable/main amd64 libgraphite2-3 amd64 1.3.14-2+b1 [75.4 kB] Get: 111 http://deb.debian.org/debian unstable/main amd64 libharfbuzz0b amd64 10.0.1-1 [477 kB] Get: 112 http://deb.debian.org/debian unstable/main amd64 libhtscodecs2 amd64 1.6.1-1 [95.6 kB] Get: 113 http://deb.debian.org/debian unstable/main amd64 libhts3t64 amd64 1.20+ds-2 [455 kB] Get: 114 http://deb.debian.org/debian unstable/main amd64 libimagequant0 amd64 2.18.0-1+b2 [35.2 kB] Get: 115 http://deb.debian.org/debian unstable/main amd64 libjbig0 amd64 2.1-6.1+b2 [32.1 kB] Get: 116 http://deb.debian.org/debian unstable/main amd64 libjpeg62-turbo amd64 1:2.1.5-3+b1 [168 kB] Get: 117 http://deb.debian.org/debian unstable/main amd64 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [326 kB] Get: 118 http://deb.debian.org/debian unstable/main amd64 libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [116 kB] Get: 119 http://deb.debian.org/debian unstable/main amd64 libjs-sphinxdoc all 7.4.7-4 [158 kB] Get: 120 http://deb.debian.org/debian unstable/main amd64 libjson-perl all 4.10000-1 [87.5 kB] Get: 121 http://deb.debian.org/debian unstable/main amd64 liblapack3 amd64 3.12.0-3+b1 [2450 kB] Get: 122 http://deb.debian.org/debian unstable/main amd64 liblcms2-2 amd64 2.16-2 [160 kB] Get: 123 http://deb.debian.org/debian unstable/main amd64 liblerc4 amd64 4.0.0+ds-5 [183 kB] Get: 124 http://deb.debian.org/debian unstable/main amd64 libopenjp2-7 amd64 2.5.0-2+b4 [199 kB] Get: 125 http://deb.debian.org/debian unstable/main amd64 libpython3.13-stdlib amd64 3.13.0-2 [1992 kB] Get: 126 http://deb.debian.org/debian unstable/main amd64 libraqm0 amd64 0.10.1-1+b2 [14.1 kB] Get: 127 http://deb.debian.org/debian unstable/main amd64 libsharpyuv0 amd64 1.4.0-0.1+b1 [113 kB] Get: 128 http://deb.debian.org/debian unstable/main amd64 libwebp7 amd64 1.4.0-0.1+b1 [313 kB] Get: 129 http://deb.debian.org/debian unstable/main amd64 libtiff6 amd64 4.5.1+git230720-5 [324 kB] Get: 130 http://deb.debian.org/debian unstable/main amd64 libwebpdemux2 amd64 1.4.0-0.1+b1 [111 kB] Get: 131 http://deb.debian.org/debian unstable/main amd64 libwebpmux3 amd64 1.4.0-0.1+b1 [123 kB] Get: 132 http://deb.debian.org/debian unstable/main amd64 python-babel-localedata all 2.16.0-1 [5696 kB] Get: 133 http://deb.debian.org/debian unstable/main amd64 python3-alabaster all 0.7.16-0.1 [27.9 kB] Get: 134 http://deb.debian.org/debian unstable/main amd64 python3.13 amd64 3.13.0-2 [730 kB] Get: 135 http://deb.debian.org/debian unstable/main amd64 python3-all amd64 3.12.7-1 [1052 B] Get: 136 http://deb.debian.org/debian unstable/main amd64 python3-babel all 2.16.0-1 [114 kB] Get: 137 http://deb.debian.org/debian unstable/main amd64 python3-numpy amd64 1:1.26.4+ds-11 [4236 kB] Get: 138 http://deb.debian.org/debian unstable/main amd64 python3-chardet all 5.2.0+dfsg-1 [107 kB] Get: 139 http://deb.debian.org/debian unstable/main amd64 python3-pil amd64 10.4.0-1+b1 [522 kB] Get: 140 http://deb.debian.org/debian unstable/main amd64 python3-cairo amd64 1.26.1-2+b1 [130 kB] Get: 141 http://deb.debian.org/debian unstable/main amd64 python3-freetype all 2.5.1-1 [89.3 kB] Get: 142 http://deb.debian.org/debian unstable/main amd64 python3-rlpycairo all 0.3.0-3 [9904 B] Get: 143 http://deb.debian.org/debian unstable/main amd64 python3-reportlab all 4.2.5-1 [1117 kB] Get: 144 http://deb.debian.org/debian unstable/main amd64 w3c-sgml-lib all 1.3-3 [273 kB] Get: 145 http://deb.debian.org/debian unstable/main amd64 python3-biopython amd64 1.84+dfsg-4 [1646 kB] Get: 146 http://deb.debian.org/debian unstable/main amd64 python3-certifi all 2024.8.30+dfsg-1 [9576 B] Get: 147 http://deb.debian.org/debian unstable/main amd64 python3-charset-normalizer amd64 3.4.0-1 [118 kB] Get: 148 http://deb.debian.org/debian unstable/main amd64 python3-commonmark all 0.9.1-6 [45.3 kB] Get: 149 http://deb.debian.org/debian unstable/main amd64 python3-dateutil all 2.9.0-3 [79.3 kB] Get: 150 http://deb.debian.org/debian unstable/main amd64 python3-defusedxml all 0.7.1-2 [43.3 kB] Get: 151 http://deb.debian.org/debian unstable/main amd64 python3-roman all 4.2-1 [10.4 kB] Get: 152 http://deb.debian.org/debian unstable/main amd64 python3-docutils all 0.21.2+dfsg-2 [403 kB] Get: 153 http://deb.debian.org/debian unstable/main amd64 python3-idna all 3.8-2 [41.6 kB] Get: 154 http://deb.debian.org/debian unstable/main amd64 python3-imagesize all 1.4.1-1 [6688 B] Get: 155 http://deb.debian.org/debian unstable/main amd64 python3-markupsafe amd64 2.1.5-1+b2 [13.9 kB] Get: 156 http://deb.debian.org/debian unstable/main amd64 python3-jinja2 all 3.1.3-1 [119 kB] Get: 157 http://deb.debian.org/debian unstable/main amd64 python3-packaging all 24.1-1 [45.8 kB] Get: 158 http://deb.debian.org/debian unstable/main amd64 python3-tz all 2024.1-2 [30.9 kB] Get: 159 http://deb.debian.org/debian unstable/main amd64 python3-pandas-lib amd64 2.2.3+dfsg-5 [4389 kB] Get: 160 http://deb.debian.org/debian unstable/main amd64 python3-pandas all 2.2.3+dfsg-5 [3096 kB] Get: 161 http://deb.debian.org/debian unstable/main amd64 python3-pysam amd64 0.22.1+ds-2+b1 [3474 kB] Get: 162 http://deb.debian.org/debian unstable/main amd64 python3-pybedtools amd64 0.10.0-1+b1 [12.2 MB] Get: 163 http://deb.debian.org/debian unstable/main amd64 python3-pygments all 2.18.0+dfsg-1 [836 kB] Get: 164 http://deb.debian.org/debian unstable/main amd64 sphinx-common all 7.4.7-4 [731 kB] Get: 165 http://deb.debian.org/debian unstable/main amd64 python3-urllib3 all 2.0.7-2 [111 kB] Get: 166 http://deb.debian.org/debian unstable/main amd64 python3-requests all 2.32.3+dfsg-1 [71.9 kB] Get: 167 http://deb.debian.org/debian unstable/main amd64 python3-snowballstemmer all 2.2.0-4 [58.0 kB] Get: 168 http://deb.debian.org/debian unstable/main amd64 python3-sphinx all 7.4.7-4 [588 kB] Get: 169 http://deb.debian.org/debian unstable/main amd64 python3-recommonmark all 0.7.1+ds-5 [17.3 kB] Get: 170 http://deb.debian.org/debian unstable/main amd64 python3-six all 1.16.0-7 [16.4 kB] Fetched 103 MB in 4s (24.7 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libpython3.12-minimal:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19969 files and directories currently installed.) Preparing to unpack .../libpython3.12-minimal_3.12.7-3_amd64.deb ... Unpacking libpython3.12-minimal:amd64 (3.12.7-3) ... Selecting previously unselected package libexpat1:amd64. Preparing to unpack .../libexpat1_2.6.4-1_amd64.deb ... Unpacking libexpat1:amd64 (2.6.4-1) ... Selecting previously unselected package python3.12-minimal. Preparing to unpack .../python3.12-minimal_3.12.7-3_amd64.deb ... Unpacking python3.12-minimal (3.12.7-3) ... Setting up libpython3.12-minimal:amd64 (3.12.7-3) ... Setting up libexpat1:amd64 (2.6.4-1) ... Setting up python3.12-minimal (3.12.7-3) ... Selecting previously unselected package python3-minimal. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 20289 files and directories currently installed.) Preparing to unpack .../00-python3-minimal_3.12.7-1_amd64.deb ... Unpacking python3-minimal (3.12.7-1) ... Selecting previously unselected package media-types. Preparing to unpack .../01-media-types_10.1.0_all.deb ... Unpacking media-types (10.1.0) ... Selecting previously unselected package netbase. Preparing to unpack .../02-netbase_6.4_all.deb ... Unpacking netbase (6.4) ... Selecting previously unselected package tzdata. Preparing to unpack .../03-tzdata_2024b-3_all.deb ... Unpacking tzdata (2024b-3) ... Selecting previously unselected package libkrb5support0:amd64. Preparing to unpack .../04-libkrb5support0_1.21.3-3_amd64.deb ... Unpacking libkrb5support0:amd64 (1.21.3-3) ... Selecting previously unselected package libcom-err2:amd64. Preparing to unpack .../05-libcom-err2_1.47.1-1+b1_amd64.deb ... Unpacking libcom-err2:amd64 (1.47.1-1+b1) ... Selecting previously unselected package libk5crypto3:amd64. Preparing to unpack .../06-libk5crypto3_1.21.3-3_amd64.deb ... Unpacking libk5crypto3:amd64 (1.21.3-3) ... Selecting previously unselected package libkeyutils1:amd64. Preparing to unpack .../07-libkeyutils1_1.6.3-4_amd64.deb ... Unpacking libkeyutils1:amd64 (1.6.3-4) ... Selecting previously unselected package libkrb5-3:amd64. Preparing to unpack .../08-libkrb5-3_1.21.3-3_amd64.deb ... Unpacking libkrb5-3:amd64 (1.21.3-3) ... Selecting previously unselected package libgssapi-krb5-2:amd64. Preparing to unpack .../09-libgssapi-krb5-2_1.21.3-3_amd64.deb ... Unpacking libgssapi-krb5-2:amd64 (1.21.3-3) ... Selecting previously unselected package libtirpc-common. Preparing to unpack .../10-libtirpc-common_1.3.4+ds-1.3_all.deb ... Unpacking libtirpc-common (1.3.4+ds-1.3) ... Selecting previously unselected package libtirpc3t64:amd64. Preparing to unpack .../11-libtirpc3t64_1.3.4+ds-1.3+b1_amd64.deb ... Adding 'diversion of /lib/x86_64-linux-gnu/libtirpc.so.3 to /lib/x86_64-linux-gnu/libtirpc.so.3.usr-is-merged by libtirpc3t64' Adding 'diversion of /lib/x86_64-linux-gnu/libtirpc.so.3.0.0 to /lib/x86_64-linux-gnu/libtirpc.so.3.0.0.usr-is-merged by libtirpc3t64' Unpacking libtirpc3t64:amd64 (1.3.4+ds-1.3+b1) ... Selecting previously unselected package libnsl2:amd64. Preparing to unpack .../12-libnsl2_1.3.0-3+b3_amd64.deb ... Unpacking libnsl2:amd64 (1.3.0-3+b3) ... Selecting previously unselected package readline-common. Preparing to unpack .../13-readline-common_8.2-5_all.deb ... Unpacking readline-common (8.2-5) ... Selecting previously unselected package libreadline8t64:amd64. Preparing to unpack .../14-libreadline8t64_8.2-5_amd64.deb ... Adding 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8 to /lib/x86_64-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8.2 to /lib/x86_64-linux-gnu/libhistory.so.8.2.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8 to /lib/x86_64-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8.2 to /lib/x86_64-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64' Unpacking libreadline8t64:amd64 (8.2-5) ... Selecting previously unselected package libpython3.12-stdlib:amd64. Preparing to unpack .../15-libpython3.12-stdlib_3.12.7-3_amd64.deb ... Unpacking libpython3.12-stdlib:amd64 (3.12.7-3) ... Selecting previously unselected package python3.12. Preparing to unpack .../16-python3.12_3.12.7-3_amd64.deb ... Unpacking python3.12 (3.12.7-3) ... Selecting previously unselected package libpython3-stdlib:amd64. Preparing to unpack .../17-libpython3-stdlib_3.12.7-1_amd64.deb ... Unpacking libpython3-stdlib:amd64 (3.12.7-1) ... Setting up python3-minimal (3.12.7-1) ... Selecting previously unselected package python3. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 21351 files and directories currently installed.) Preparing to unpack .../000-python3_3.12.7-1_amd64.deb ... Unpacking python3 (3.12.7-1) ... Selecting previously unselected package libpython3.13-minimal:amd64. Preparing to unpack .../001-libpython3.13-minimal_3.13.0-2_amd64.deb ... Unpacking libpython3.13-minimal:amd64 (3.13.0-2) ... Selecting previously unselected package python3.13-minimal. Preparing to unpack .../002-python3.13-minimal_3.13.0-2_amd64.deb ... Unpacking python3.13-minimal (3.13.0-2) ... Selecting previously unselected package sgml-base. Preparing to unpack .../003-sgml-base_1.31_all.deb ... Unpacking sgml-base (1.31) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../004-sensible-utils_0.0.24_all.deb ... Unpacking sensible-utils (0.0.24) ... Selecting previously unselected package openssl. Preparing to unpack .../005-openssl_3.3.2-2_amd64.deb ... Unpacking openssl (3.3.2-2) ... Selecting previously unselected package ca-certificates. Preparing to unpack .../006-ca-certificates_20240203_all.deb ... Unpacking ca-certificates (20240203) ... Selecting previously unselected package libmagic-mgc. 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Setting up liblerc4:amd64 (4.0.0+ds-5) ... Setting up bsdextrautils (2.40.2-11) ... Setting up libmagic-mgc (1:5.45-3+b1) ... Setting up libxcb-render0:amd64 (1.17.0-2+b1) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libtirpc-common (1.3.4+ds-1.3) ... Setting up libdebhelper-perl (13.20) ... Setting up libbrotli1:amd64 (1.1.0-2+b6) ... Setting up libmagic1t64:amd64 (1:5.45-3+b1) ... Setting up x11-common (1:7.7+23.1) ... 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+b1) ... Setting up libnghttp2-14:amd64 (1.64.0-1) ... Setting up libdeflate0:amd64 (1.22-1) ... Setting up gettext-base (0.22.5-2) ... Setting up m4 (1.4.19-4) ... Setting up libxcb-shm0:amd64 (1.17.0-2+b1) ... Setting up libcom-err2:amd64 (1.47.1-1+b1) ... Setting up file (1:5.45-3+b1) ... Setting up libjbig0:amd64 (2.1-6.1+b2) ... Setting up libelf1t64:amd64 (0.192-4) ... Setting up python-babel-localedata (2.16.0-1) ... Setting up libkrb5support0:amd64 (1.21.3-3) ... Setting up libsasl2-modules-db:amd64 (2.1.28+dfsg1-8) ... Setting up tzdata (2024b-3) ... Current default time zone: 'Etc/UTC' Local time is now: Thu Nov 14 07:26:19 UTC 2024. Universal Time is now: Thu Nov 14 07:26:19 UTC 2024. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up libpython3.13-minimal:amd64 (3.13.0-2) ... Setting up libfontenc1:amd64 (1:1.1.8-1+b1) ... Setting up autotools-dev (20220109.1) ... Setting up libglib2.0-0t64:amd64 (2.82.2-3) ... No schema files found: doing nothing. Setting up libblas3:amd64 (3.12.0-3+b1) ... 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+b1) ... Setting up libx11-data (2:1.8.10-2) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b5) ... 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Setting up sgml-base (1.31) ... Setting up libkrb5-3:amd64 (1.21.3-3) ... Setting up libssh2-1t64:amd64 (1.11.1-1) ... Setting up libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... Setting up openssl (3.3.2-2) ... Setting up libwebpmux3:amd64 (1.4.0-0.1+b1) ... Setting up readline-common (8.2-5) ... Setting up libxml2:amd64 (2.12.7+dfsg+really2.9.14-0.2+b1) ... Setting up libngtcp2-crypto-gnutls8:amd64 (1.6.0-1) ... Setting up libjs-underscore (1.13.4~dfsg+~1.11.4-3) ... 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 (1.14.0-1) ... Setting up liblapack3:amd64 (3.12.0-3+b1) ... 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 gettext (0.22.5-2) ... Setting up libxrender1:amd64 (1:0.9.10-1.1+b2) ... Setting up libtool (2.4.7-8) ... Setting up fontconfig-config (2.15.0-1.1+b1) ... Setting up libwebpdemux2:amd64 (1.4.0-0.1+b1) ... Setting up libxext6:amd64 (2:1.3.4-1+b2) ... Setting up libldap-2.5-0:amd64 (2.5.18+dfsg-3+b1) ... 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 (2.13.3+dfsg-1) ... Setting up libgssapi-krb5-2:amd64 (1.21.3-3) ... Setting up libjs-sphinxdoc (7.4.7-4) ... Setting up libreadline8t64:amd64 (8.2-5) ... Setting up dh-strip-nondeterminism (1.14.0-1) ... Setting up groff-base (1.23.0-5) ... Setting up xml-core (0.19) ... Setting up libharfbuzz0b:amd64 (10.0.1-1) ... Setting up libfontconfig1:amd64 (2.15.0-1.1+b1) ... Setting up libpython3.13-stdlib:amd64 (3.13.0-2) ... Setting up libtirpc3t64:amd64 (1.3.4+ds-1.3+b1) ... Setting up python3.13 (3.13.0-2) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libcurl3t64-gnutls:amd64 (8.11.0-1) ... Setting up xfonts-utils (1:7.7+7) ... Setting up man-db (2.13.0-1) ... Not building database; man-db/auto-update is not 'true'. Setting up libcairo2:amd64 (1.18.2-2) ... Setting up libraqm0:amd64 (0.10.1-1+b2) ... Setting up sphinx-common (7.4.7-4) ... Setting up libnsl2:amd64 (1.3.0-3+b3) ... Setting up libhts3t64:amd64 (1.20+ds-2) ... Setting up libpython3.12-stdlib:amd64 (3.12.7-3) ... Setting up python3.12 (3.12.7-3) ... Setting up debhelper (13.20) ... Setting up fonts-urw-base35 (20200910-8) ... Setting up libpython3-stdlib:amd64 (3.12.7-1) ... Setting up python3 (3.12.7-1) ... Setting up python3-zipp (3.21.0-1) ... Setting up python3-freetype (2.5.1-1) ... Setting up python3-autocommand (2.2.2-3) ... Setting up python3-markupsafe (2.1.5-1+b2) ... Setting up python3-tz (2024.1-2) ... Setting up python3-six (1.16.0-7) ... Setting up python3-pil:amd64 (10.4.0-1+b1) ... Setting up python3-roman (4.2-1) ... Setting up python3-jinja2 (3.1.3-1) ... Setting up python3-packaging (24.1-1) ... Setting up python3-certifi (2024.8.30+dfsg-1) ... Setting up python3-snowballstemmer (2.2.0-4) ... Setting up python3-idna (3.8-2) ... Setting up python3-typing-extensions (4.12.2-2) ... Setting up python3-urllib3 (2.0.7-2) ... Setting up python3-dateutil (2.9.0-3) ... Setting up python3-imagesize (1.4.1-1) ... Setting up python3-commonmark (0.9.1-6) ... Setting up python3-more-itertools (10.5.0-1) ... Setting up python3-pysam (0.22.1+ds-2+b1) ... Setting up python3-cairo (1.26.1-2+b1) ... Setting up python3-jaraco.functools (4.1.0-1) ... Setting up python3-jaraco.context (6.0.0-1) ... Setting up python3-defusedxml (0.7.1-2) ... Setting up python3-charset-normalizer (3.4.0-1) ... Setting up python3-alabaster (0.7.16-0.1) ... Setting up python3-typeguard (4.4.1-1) ... Setting up python3-all (3.12.7-1) ... Setting up python3-inflect (7.3.1-2) ... Setting up python3-rlpycairo (0.3.0-3) ... Setting up python3-jaraco.text (4.0.0-1) ... Setting up python3-pkg-resources (75.2.0-1) ... Setting up python3-setuptools (75.2.0-1) ... Setting up python3-babel (2.16.0-1) ... update-alternatives: using /usr/bin/pybabel-python3 to provide /usr/bin/pybabel (pybabel) in auto mode Setting up python3-pygments (2.18.0+dfsg-1) ... Setting up python3-chardet (5.2.0+dfsg-1) ... Setting up python3-requests (2.32.3+dfsg-1) ... Setting up python3-numpy (1:1.26.4+ds-11) ... Setting up python3-reportlab (4.2.5-1) ... Setting up dh-python (6.20241024) ... Setting up python3-pybedtools (0.10.0-1+b1) ... Setting up python3-pandas-lib:amd64 (2.2.3+dfsg-5) ... Setting up python3-pandas (2.2.3+dfsg-5) ... Processing triggers for libc-bin (2.40-3) ... Processing triggers for sgml-base (1.31) ... Setting up docutils-common (0.21.2+dfsg-2) ... Setting up w3c-sgml-lib (1.3-3) ... Setting up python3-biopython (1.84+dfsg-4) ... Processing triggers for sgml-base (1.31) ... Setting up python3-docutils (0.21.2+dfsg-2) ... Setting up python3-sphinx (7.4.7-4) ... Setting up python3-recommonmark (0.7.1+ds-5) ... /usr/lib/python3/dist-packages/recommonmark/transform.py:254: SyntaxWarning: invalid escape sequence '\w' match = re.search('[ ]?[\w_-]+::.*', language) /usr/lib/python3/dist-packages/recommonmark/transform.py:254: SyntaxWarning: invalid escape sequence '\w' match = re.search('[ ]?[\w_-]+::.*', language) 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/mirtop-0.4.28/ && 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 > ../mirtop_0.4.28-1_source.changes dpkg-buildpackage: info: source package mirtop dpkg-buildpackage: info: source version 0.4.28-1 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Alexandre Detiste dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 dpkg-source: info: using options from mirtop-0.4.28/debian/source/options: --extend-diff-ignore=^[^/]*[.]egg-info/ debian/rules clean dh clean --with sphinxdoc --buildsystem=pybuild dh_auto_clean -O--buildsystem=pybuild pybuild --clean -i python{version} -p "3.13 3.12" I: pybuild base:311: python3.13 setup.py clean /usr/lib/python3/dist-packages/setuptools/_distutils/dist.py:261: UserWarning: Unknown distribution option: 'test_suite' warnings.warn(msg) running clean removing '/build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build' (and everything under it) 'build/bdist.linux-x86_64' does not exist -- can't clean it 'build/scripts-3.13' does not exist -- can't clean it I: pybuild base:311: python3.12 setup.py clean /usr/lib/python3/dist-packages/setuptools/_distutils/dist.py:261: UserWarning: Unknown distribution option: 'test_suite' warnings.warn(msg) running clean removing '/build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/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 rm -rf .pybuild/ find . -name \*.pyc -exec rm {} \; dh_autoreconf_clean -O--buildsystem=pybuild dh_clean -O--buildsystem=pybuild rm -f debian/debhelper-build-stamp rm -rf debian/.debhelper/ rm -f -- debian/python3-mirtop.substvars debian/mirtop.substvars ./mirtop/version.py debian/files rm -fr -- debian/python3-mirtop/ debian/tmp/ debian/mirtop/ find . \( \( \ \( -path .\*/.git -o -path .\*/.svn -o -path .\*/.bzr -o -path .\*/.hg -o -path .\*/CVS -o -path .\*/.pc -o -path .\*/_darcs \) -prune -o -type f -a \ \( -name '#*#' -o -name '.*~' -o -name '*~' -o -name DEADJOE \ -o -name '*.orig' -o -name '*.rej' -o -name '*.bak' \ -o -name '.*.orig' -o -name .*.rej -o -name '.SUMS' \ -o -name TAGS -o \( -path '*/.deps/*' -a -name '*.P' \) \ \) -exec rm -f {} + \) -o \ \( -type d -a \( -name autom4te.cache -o -name __pycache__ \) -prune -exec rm -rf {} + \) \) debian/rules binary dh binary --with sphinxdoc --buildsystem=pybuild dh_update_autotools_config -O--buildsystem=pybuild dh_autoreconf -O--buildsystem=pybuild dh_auto_configure -O--buildsystem=pybuild pybuild --configure -i python{version} -p "3.13 3.12" I: pybuild base:311: python3.13 setup.py config /usr/lib/python3/dist-packages/setuptools/_distutils/dist.py:261: UserWarning: Unknown distribution option: 'test_suite' warnings.warn(msg) running config I: pybuild base:311: python3.12 setup.py config /usr/lib/python3/dist-packages/setuptools/_distutils/dist.py:261: UserWarning: Unknown distribution option: 'test_suite' warnings.warn(msg) running config debian/rules override_dh_auto_build make[1]: Entering directory '/build/reproducible-path/mirtop-0.4.28' dh_auto_build pybuild --build -i python{version} -p "3.13 3.12" I: pybuild base:311: /usr/bin/python3.13 setup.py build /usr/lib/python3/dist-packages/setuptools/_distutils/dist.py:261: UserWarning: Unknown distribution option: 'test_suite' warnings.warn(msg) running build running build_py creating /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop copying mirtop/command_line.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop copying mirtop/version.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop copying mirtop/install.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop copying mirtop/__init__.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop creating /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/sql copying mirtop/sql/sql.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/sql copying mirtop/sql/__init__.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/sql creating /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/importer copying mirtop/importer/manatee.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/importer copying mirtop/importer/seqbuster.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/importer copying mirtop/importer/srnabench.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/importer copying mirtop/importer/optimir.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/importer copying mirtop/importer/__init__.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/importer copying mirtop/importer/isomirsea.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/importer copying mirtop/importer/prost.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/importer creating /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/exporter copying mirtop/exporter/seqbuster.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/exporter copying mirtop/exporter/fasta.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/exporter copying mirtop/exporter/isomirs.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/exporter copying mirtop/exporter/vcf.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/exporter copying mirtop/exporter/__init__.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/exporter creating /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/gff copying mirtop/gff/check.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/gff copying mirtop/gff/validator.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/gff copying mirtop/gff/compare.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/gff copying mirtop/gff/update.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/gff copying mirtop/gff/body.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/gff copying mirtop/gff/__init__.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/gff copying mirtop/gff/query.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/gff copying mirtop/gff/gff_versions.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/gff copying mirtop/gff/stats.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/gff copying mirtop/gff/classgff.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/gff copying mirtop/gff/convert.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/gff copying mirtop/gff/merge.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/gff copying mirtop/gff/header.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/gff copying mirtop/gff/read.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/gff creating /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/libs copying mirtop/libs/config.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/libs copying mirtop/libs/sql.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/libs copying mirtop/libs/parse.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/libs copying mirtop/libs/spikeins.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/libs copying mirtop/libs/fastq.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/libs copying mirtop/libs/do.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/libs copying mirtop/libs/simulator.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/libs copying mirtop/libs/utils.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/libs copying mirtop/libs/__init__.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/libs copying mirtop/libs/logger.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/libs copying mirtop/libs/read.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/libs creating /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/bam copying mirtop/bam/filter.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/bam copying mirtop/bam/bam.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/bam copying mirtop/bam/__init__.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/bam creating /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/mirna copying mirtop/mirna/mintplates.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/mirna copying mirtop/mirna/annotate.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/mirna copying mirtop/mirna/fasta.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/mirna copying mirtop/mirna/realign.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/mirna copying mirtop/mirna/keys.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/mirna copying mirtop/mirna/mapper.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/mirna copying mirtop/mirna/snps.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/mirna copying mirtop/mirna/__init__.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/mirna running egg_info creating mirtop.egg-info writing mirtop.egg-info/PKG-INFO writing dependency_links to mirtop.egg-info/dependency_links.txt writing entry points to mirtop.egg-info/entry_points.txt writing top-level names to mirtop.egg-info/top_level.txt writing manifest file 'mirtop.egg-info/SOURCES.txt' reading manifest file 'mirtop.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' adding license file 'LICENSE' writing manifest file 'mirtop.egg-info/SOURCES.txt' I: pybuild base:311: /usr/bin/python3 setup.py build /usr/lib/python3/dist-packages/setuptools/_distutils/dist.py:261: UserWarning: Unknown distribution option: 'test_suite' warnings.warn(msg) running build running build_py creating /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop copying mirtop/command_line.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop copying mirtop/version.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop copying mirtop/install.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop copying mirtop/__init__.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop creating /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/sql copying mirtop/sql/sql.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/sql copying mirtop/sql/__init__.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/sql creating /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/importer copying mirtop/importer/manatee.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/importer copying mirtop/importer/seqbuster.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/importer copying mirtop/importer/srnabench.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/importer copying mirtop/importer/optimir.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/importer copying mirtop/importer/__init__.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/importer copying mirtop/importer/isomirsea.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/importer copying mirtop/importer/prost.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/importer creating /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/exporter copying mirtop/exporter/seqbuster.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/exporter copying mirtop/exporter/fasta.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/exporter copying mirtop/exporter/isomirs.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/exporter copying mirtop/exporter/vcf.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/exporter copying mirtop/exporter/__init__.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/exporter creating /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/gff copying mirtop/gff/check.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/gff copying mirtop/gff/validator.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/gff copying mirtop/gff/compare.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/gff copying mirtop/gff/update.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/gff copying mirtop/gff/body.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/gff copying mirtop/gff/__init__.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/gff copying mirtop/gff/query.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/gff copying mirtop/gff/gff_versions.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/gff copying mirtop/gff/stats.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/gff copying mirtop/gff/classgff.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/gff copying mirtop/gff/convert.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/gff copying mirtop/gff/merge.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/gff copying mirtop/gff/header.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/gff copying mirtop/gff/read.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/gff creating /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/libs copying mirtop/libs/config.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/libs copying mirtop/libs/sql.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/libs copying mirtop/libs/parse.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/libs copying mirtop/libs/spikeins.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/libs copying mirtop/libs/fastq.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/libs copying mirtop/libs/do.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/libs copying mirtop/libs/simulator.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/libs copying mirtop/libs/utils.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/libs copying mirtop/libs/__init__.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/libs copying mirtop/libs/logger.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/libs copying mirtop/libs/read.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/libs creating /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/bam copying mirtop/bam/filter.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/bam copying mirtop/bam/bam.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/bam copying mirtop/bam/__init__.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/bam creating /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/mirna copying mirtop/mirna/mintplates.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/mirna copying mirtop/mirna/annotate.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/mirna copying mirtop/mirna/fasta.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/mirna copying mirtop/mirna/realign.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/mirna copying mirtop/mirna/keys.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/mirna copying mirtop/mirna/mapper.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/mirna copying mirtop/mirna/snps.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/mirna copying mirtop/mirna/__init__.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/mirna running egg_info writing mirtop.egg-info/PKG-INFO writing dependency_links to mirtop.egg-info/dependency_links.txt writing entry points to mirtop.egg-info/entry_points.txt writing top-level names to mirtop.egg-info/top_level.txt reading manifest file 'mirtop.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' adding license file 'LICENSE' writing manifest file 'mirtop.egg-info/SOURCES.txt' PYTHONPATH=. python3 -m sphinx -N -bman docs/ build/man # Manpage generator Running Sphinx v7.4.7 WARNING: Invalid configuration value found: 'language = None'. Update your configuration to a valid language code. Falling back to 'en' (English). loading translations [en]... done making output directory... done WARNING: html_static_path entry '_static' does not exist Converting `source_suffix = ['.rst', '.md']` to `source_suffix = {'.rst': 'restructuredtext', '.md': 'restructuredtext'}`. building [mo]: targets for 0 po files that are out of date writing output... building [man]: all manpages updating environment: [new config] 11 added, 0 changed, 0 removed reading sources... [ 9%] CONTRIBUTING reading sources... [ 18%] code /usr/lib/python3/dist-packages/Bio/pairwise2.py:278: BiopythonDeprecationWarning: Bio.pairwise2 has been deprecated, and we intend to remove it in a future release of Biopython. As an alternative, please consider using Bio.Align.PairwiseAligner as a replacement, and contact the Biopython developers if you still need the Bio.pairwise2 module. warnings.warn( reading sources... [ 27%] code_structure reading sources... [ 36%] competition reading sources... [ 45%] how_to_contribute reading sources... [ 55%] index reading sources... [ 64%] installation reading sources... [ 73%] issue_template reading sources... [ 82%] output reading sources... [ 91%] quick_start reading sources... [100%] sql_usage /build/reproducible-path/mirtop-0.4.28/mirtop/gff/body.py:docstring of mirtop.gff.body.lift_to_genome:7: ERROR: Unexpected indentation. /build/reproducible-path/mirtop-0.4.28/mirtop/mirna/realign.py:docstring of mirtop.mirna.realign.hits:1: WARNING: duplicate object description of mirtop.mirna.realign.hits, other instance in code, use :no-index: for one of them /build/reproducible-path/mirtop-0.4.28/mirtop/mirna/realign.py:docstring of mirtop.mirna.realign.isomir:1: WARNING: duplicate object description of mirtop.mirna.realign.isomir, other instance in code, use :no-index: for one of them /build/reproducible-path/mirtop-0.4.28/mirtop/mirna/realign.py:docstring of mirtop.mirna.realign.isomir.format:1: WARNING: duplicate object description of mirtop.mirna.realign.isomir.format, other instance in code, use :no-index: for one of them /build/reproducible-path/mirtop-0.4.28/mirtop/mirna/realign.py:docstring of mirtop.mirna.realign.isomir.formatGFF:1: WARNING: duplicate object description of mirtop.mirna.realign.isomir.formatGFF, other instance in code, use :no-index: for one of them /build/reproducible-path/mirtop-0.4.28/mirtop/mirna/realign.py:docstring of mirtop.mirna.realign.isomir.format_id:1: WARNING: duplicate object description of mirtop.mirna.realign.isomir.format_id, other instance in code, use :no-index: for one of them /build/reproducible-path/mirtop-0.4.28/mirtop/mirna/realign.py:docstring of mirtop.mirna.realign.isomir.get_score:1: WARNING: duplicate object description of mirtop.mirna.realign.isomir.get_score, other instance in code, use :no-index: for one of them /build/reproducible-path/mirtop-0.4.28/mirtop/mirna/realign.py:docstring of mirtop.mirna.realign.isomir.is_iso:1: WARNING: duplicate object description of mirtop.mirna.realign.isomir.is_iso, other instance in code, use :no-index: for one of them /build/reproducible-path/mirtop-0.4.28/mirtop/mirna/realign.py:docstring of mirtop.mirna.realign.isomir.set_pos:1: WARNING: duplicate object description of mirtop.mirna.realign.isomir.set_pos, other instance in code, use :no-index: for one of them /build/reproducible-path/mirtop-0.4.28/docs/code_structure.md:5: ERROR: Unexpected indentation. /build/reproducible-path/mirtop-0.4.28/docs/code_structure.md:6: WARNING: Block quote ends without a blank line; unexpected unindent. /build/reproducible-path/mirtop-0.4.28/docs/code_structure.md:12: ERROR: Unexpected indentation. /build/reproducible-path/mirtop-0.4.28/docs/code_structure.md:13: WARNING: Block quote ends without a blank line; unexpected unindent. /build/reproducible-path/mirtop-0.4.28/docs/code_structure.md:24: ERROR: Unexpected indentation. /build/reproducible-path/mirtop-0.4.28/docs/code_structure.md:25: WARNING: Block quote ends without a blank line; unexpected unindent. /build/reproducible-path/mirtop-0.4.28/docs/code_structure.md:39: WARNING: Bullet list ends without a blank line; unexpected unindent. /build/reproducible-path/mirtop-0.4.28/docs/how_to_contribute.md:10: WARNING: Bullet list ends without a blank line; unexpected unindent. /build/reproducible-path/mirtop-0.4.28/docs/how_to_contribute.md:15: WARNING: Inline literal start-string without end-string. /build/reproducible-path/mirtop-0.4.28/docs/how_to_contribute.md:30: ERROR: Unexpected indentation. /build/reproducible-path/mirtop-0.4.28/docs/how_to_contribute.md:31: WARNING: Definition list ends without a blank line; unexpected unindent. /build/reproducible-path/mirtop-0.4.28/docs/how_to_contribute.md:31: WARNING: Inline literal start-string without end-string. /build/reproducible-path/mirtop-0.4.28/docs/how_to_contribute.md:31: WARNING: Inline interpreted text or phrase reference start-string without end-string. /build/reproducible-path/mirtop-0.4.28/docs/how_to_contribute.md:38: ERROR: Unexpected indentation. /build/reproducible-path/mirtop-0.4.28/docs/how_to_contribute.md:36: WARNING: Inline literal start-string without end-string. /build/reproducible-path/mirtop-0.4.28/docs/how_to_contribute.md:42: WARNING: Block quote ends without a blank line; unexpected unindent. /build/reproducible-path/mirtop-0.4.28/docs/how_to_contribute.md:42: WARNING: Inline literal start-string without end-string. /build/reproducible-path/mirtop-0.4.28/docs/how_to_contribute.md:42: WARNING: Inline interpreted text or phrase reference start-string without end-string. /build/reproducible-path/mirtop-0.4.28/docs/how_to_contribute.md:46: WARNING: Inline literal start-string without end-string. /build/reproducible-path/mirtop-0.4.28/docs/how_to_contribute.md:46: WARNING: Inline interpreted text or phrase reference start-string without end-string. /build/reproducible-path/mirtop-0.4.28/docs/how_to_contribute.md:56: WARNING: Definition list ends without a blank line; unexpected unindent. /build/reproducible-path/mirtop-0.4.28/docs/how_to_contribute.md:56: WARNING: Inline literal start-string without end-string. /build/reproducible-path/mirtop-0.4.28/docs/how_to_contribute.md:56: WARNING: Inline interpreted text or phrase reference start-string without end-string. /build/reproducible-path/mirtop-0.4.28/docs/how_to_contribute.md:60: WARNING: Inline literal start-string without end-string. /build/reproducible-path/mirtop-0.4.28/docs/how_to_contribute.md:60: WARNING: Inline interpreted text or phrase reference start-string without end-string. /build/reproducible-path/mirtop-0.4.28/docs/how_to_contribute.md:64: WARNING: Definition list ends without a blank line; unexpected unindent. /build/reproducible-path/mirtop-0.4.28/docs/how_to_contribute.md:64: WARNING: Inline literal start-string without end-string. /build/reproducible-path/mirtop-0.4.28/docs/how_to_contribute.md:64: WARNING: Inline interpreted text or phrase reference start-string without end-string. /build/reproducible-path/mirtop-0.4.28/docs/how_to_contribute.md:86: WARNING: Inline literal start-string without end-string. /build/reproducible-path/mirtop-0.4.28/docs/how_to_contribute.md:86: WARNING: Inline interpreted text or phrase reference start-string without end-string. /build/reproducible-path/mirtop-0.4.28/docs/how_to_contribute.md:89: ERROR: Unexpected indentation. /build/reproducible-path/mirtop-0.4.28/docs/how_to_contribute.md:92: WARNING: Inline literal start-string without end-string. /build/reproducible-path/mirtop-0.4.28/docs/how_to_contribute.md:92: WARNING: Inline interpreted text or phrase reference start-string without end-string. /build/reproducible-path/mirtop-0.4.28/docs/how_to_contribute.md:98: WARNING: Inline literal start-string without end-string. /build/reproducible-path/mirtop-0.4.28/docs/how_to_contribute.md:98: WARNING: Inline interpreted text or phrase reference start-string without end-string. /build/reproducible-path/mirtop-0.4.28/docs/how_to_contribute.md:101: ERROR: Unexpected indentation. /build/reproducible-path/mirtop-0.4.28/docs/how_to_contribute.md:104: ERROR: Unexpected indentation. /build/reproducible-path/mirtop-0.4.28/docs/how_to_contribute.md:107: WARNING: Definition list ends without a blank line; unexpected unindent. /build/reproducible-path/mirtop-0.4.28/docs/how_to_contribute.md:111: WARNING: Inline literal start-string without end-string. /build/reproducible-path/mirtop-0.4.28/docs/how_to_contribute.md:111: WARNING: Inline interpreted text or phrase reference start-string without end-string. /build/reproducible-path/mirtop-0.4.28/docs/installation.md:21: WARNING: Inline literal start-string without end-string. /build/reproducible-path/mirtop-0.4.28/docs/installation.md:35: WARNING: Inline literal start-string without end-string. /build/reproducible-path/mirtop-0.4.28/docs/installation.md:35: WARNING: Inline interpreted text or phrase reference start-string without end-string. /build/reproducible-path/mirtop-0.4.28/docs/sql_usage.md:14: ERROR: Unexpected indentation. /build/reproducible-path/mirtop-0.4.28/docs/sql_usage.md:7: WARNING: Inline literal start-string without end-string. /build/reproducible-path/mirtop-0.4.28/docs/sql_usage.md:26: WARNING: Option list ends without a blank line; unexpected unindent. /build/reproducible-path/mirtop-0.4.28/docs/sql_usage.md:35: ERROR: Unexpected indentation. /build/reproducible-path/mirtop-0.4.28/docs/sql_usage.md:36: WARNING: Block quote ends without a blank line; unexpected unindent. /build/reproducible-path/mirtop-0.4.28/docs/sql_usage.md:51: ERROR: Unexpected indentation. /build/reproducible-path/mirtop-0.4.28/docs/sql_usage.md:58: ERROR: Unexpected indentation. /build/reproducible-path/mirtop-0.4.28/docs/sql_usage.md:62: WARNING: Inline literal start-string without end-string. /build/reproducible-path/mirtop-0.4.28/docs/sql_usage.md:115: ERROR: Unexpected indentation. /build/reproducible-path/mirtop-0.4.28/docs/sql_usage.md:113: WARNING: Inline literal start-string without end-string. /build/reproducible-path/mirtop-0.4.28/docs/sql_usage.md:121: WARNING: Block quote ends without a blank line; unexpected unindent. /build/reproducible-path/mirtop-0.4.28/docs/sql_usage.md:121: WARNING: Inline literal start-string without end-string. /build/reproducible-path/mirtop-0.4.28/docs/sql_usage.md:121: WARNING: Inline interpreted text or phrase reference start-string without end-string. /build/reproducible-path/mirtop-0.4.28/docs/sql_usage.md:135: ERROR: Unexpected indentation. /build/reproducible-path/mirtop-0.4.28/docs/sql_usage.md:132: WARNING: Inline literal start-string without end-string. /build/reproducible-path/mirtop-0.4.28/docs/sql_usage.md:148: WARNING: Block quote ends without a blank line; unexpected unindent. /build/reproducible-path/mirtop-0.4.28/docs/sql_usage.md:148: WARNING: Inline literal start-string without end-string. /build/reproducible-path/mirtop-0.4.28/docs/sql_usage.md:148: WARNING: Inline interpreted text or phrase reference start-string without end-string. /build/reproducible-path/mirtop-0.4.28/docs/sql_usage.md:156: WARNING: Inline literal start-string without end-string. /build/reproducible-path/mirtop-0.4.28/docs/sql_usage.md:195: WARNING: Inline literal start-string without end-string. /build/reproducible-path/mirtop-0.4.28/docs/sql_usage.md:195: WARNING: Inline interpreted text or phrase reference start-string without end-string. /build/reproducible-path/mirtop-0.4.28/docs/sql_usage.md:201: WARNING: Inline literal start-string without end-string. /build/reproducible-path/mirtop-0.4.28/docs/sql_usage.md:219: WARNING: Inline literal start-string without end-string. /build/reproducible-path/mirtop-0.4.28/docs/sql_usage.md:219: WARNING: Inline interpreted text or phrase reference start-string without end-string. /build/reproducible-path/mirtop-0.4.28/docs/sql_usage.md:229: ERROR: Unexpected indentation. /build/reproducible-path/mirtop-0.4.28/docs/sql_usage.md:227: WARNING: Inline literal start-string without end-string. /build/reproducible-path/mirtop-0.4.28/docs/sql_usage.md:230: WARNING: Block quote ends without a blank line; unexpected unindent. /build/reproducible-path/mirtop-0.4.28/docs/sql_usage.md:234: WARNING: Definition list ends without a blank line; unexpected unindent. /build/reproducible-path/mirtop-0.4.28/docs/sql_usage.md:234: WARNING: Inline literal start-string without end-string. /build/reproducible-path/mirtop-0.4.28/docs/sql_usage.md:238: WARNING: Inline literal start-string without end-string. /build/reproducible-path/mirtop-0.4.28/docs/sql_usage.md:245: WARNING: Inline literal start-string without end-string. /build/reproducible-path/mirtop-0.4.28/docs/sql_usage.md:245: WARNING: Inline interpreted text or phrase reference start-string without end-string. /build/reproducible-path/mirtop-0.4.28/docs/sql_usage.md:358: WARNING: Inline literal start-string without end-string. /build/reproducible-path/mirtop-0.4.28/docs/sql_usage.md:364: WARNING: Inline literal start-string without end-string. /build/reproducible-path/mirtop-0.4.28/docs/sql_usage.md:364: WARNING: Inline interpreted text or phrase reference start-string without end-string. /build/reproducible-path/mirtop-0.4.28/docs/sql_usage.md:387: WARNING: Inline literal start-string without end-string. /build/reproducible-path/mirtop-0.4.28/docs/sql_usage.md:397: WARNING: Inline literal start-string without end-string. /build/reproducible-path/mirtop-0.4.28/docs/sql_usage.md:397: WARNING: Inline interpreted text or phrase reference start-string without end-string. looking for now-outdated files... none found pickling environment... done checking consistency... /build/reproducible-path/mirtop-0.4.28/docs/CONTRIBUTING.md: WARNING: document isn't included in any toctree /build/reproducible-path/mirtop-0.4.28/docs/issue_template.md: WARNING: document isn't included in any toctree /build/reproducible-path/mirtop-0.4.28/docs/sql_usage.md: WARNING: document isn't included in any toctree done writing... mirtop.1 { competition installation quick_start output code_structure how_to_contribute code } done build succeeded, 95 warnings. The manual pages are in build/man. make[1]: Leaving directory '/build/reproducible-path/mirtop-0.4.28' rm -f debian/mirtop.debhelper.log debian/python3-mirtop.debhelper.log debian/rules override_dh_auto_test make[1]: Entering directory '/build/reproducible-path/mirtop-0.4.28' # No tests, yet Not testing. make[1]: Leaving directory '/build/reproducible-path/mirtop-0.4.28' create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=pybuild dh_prep -O--buildsystem=pybuild rm -f -- debian/python3-mirtop.substvars debian/mirtop.substvars rm -fr -- debian/.debhelper/generated/python3-mirtop/ debian/python3-mirtop/ debian/tmp/ debian/.debhelper/generated/mirtop/ debian/mirtop/ dh_auto_install -O--buildsystem=pybuild install -m0755 -d /build/reproducible-path/mirtop-0.4.28/debian/tmp pybuild --install -i python{version} -p "3.13 3.12" --dest-dir /build/reproducible-path/mirtop-0.4.28/debian/tmp I: pybuild base:311: /usr/bin/python3.13 setup.py install --root /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop /usr/lib/python3/dist-packages/setuptools/_distutils/dist.py:261: UserWarning: Unknown distribution option: 'test_suite' warnings.warn(msg) 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 copying mirtop/version.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop running egg_info writing mirtop.egg-info/PKG-INFO writing dependency_links to mirtop.egg-info/dependency_links.txt writing entry points to mirtop.egg-info/entry_points.txt writing top-level names to mirtop.egg-info/top_level.txt reading manifest file 'mirtop.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' adding license file 'LICENSE' writing manifest file 'mirtop.egg-info/SOURCES.txt' running install_lib creating /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages creating /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop creating /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/sql copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/sql/sql.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/sql copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/sql/__init__.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/sql copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/command_line.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/version.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop creating /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/importer copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/importer/manatee.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/importer copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/importer/seqbuster.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/importer copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/importer/srnabench.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/importer copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/importer/optimir.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/importer copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/importer/__init__.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/importer copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/importer/isomirsea.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/importer copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/importer/prost.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/importer creating /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/exporter copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/exporter/seqbuster.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/exporter copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/exporter/fasta.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/exporter copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/exporter/isomirs.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/exporter copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/exporter/vcf.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/exporter copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/exporter/__init__.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/exporter creating /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/gff copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/gff/check.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/gff copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/gff/validator.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/gff copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/gff/compare.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/gff copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/gff/update.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/gff copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/gff/body.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/gff copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/gff/__init__.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/gff copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/gff/query.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/gff copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/gff/gff_versions.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/gff copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/gff/stats.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/gff copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/gff/classgff.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/gff copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/gff/convert.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/gff copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/gff/merge.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/gff copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/gff/header.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/gff copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/gff/read.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/gff creating /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/libs copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/libs/config.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/libs copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/libs/sql.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/libs copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/libs/parse.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/libs copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/libs/spikeins.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/libs copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/libs/fastq.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/libs copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/libs/do.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/libs copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/libs/simulator.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/libs copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/libs/utils.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/libs copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/libs/__init__.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/libs copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/libs/logger.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/libs copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/libs/read.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/libs creating /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/bam copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/bam/filter.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/bam copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/bam/bam.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/bam copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/bam/__init__.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/bam creating /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/mirna copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/mirna/mintplates.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/mirna copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/mirna/annotate.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/mirna copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/mirna/fasta.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/mirna copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/mirna/realign.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/mirna copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/mirna/keys.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/mirna copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/mirna/mapper.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/mirna copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/mirna/snps.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/mirna copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/mirna/__init__.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/mirna copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/install.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/__init__.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/sql/sql.py to sql.cpython-313.pyc /usr/lib/python3.13/dist-packages/mirtop/sql/sql.py:478: SyntaxWarning: invalid escape sequence '\(' byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/sql/__init__.py to __init__.cpython-313.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/command_line.py to command_line.cpython-313.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/version.py to version.cpython-313.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/importer/manatee.py to manatee.cpython-313.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/importer/seqbuster.py to seqbuster.cpython-313.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/importer/srnabench.py to srnabench.cpython-313.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/importer/optimir.py to optimir.cpython-313.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/importer/__init__.py to __init__.cpython-313.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/importer/isomirsea.py to isomirsea.cpython-313.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/importer/prost.py to prost.cpython-313.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/exporter/seqbuster.py to seqbuster.cpython-313.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/exporter/fasta.py to fasta.cpython-313.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/exporter/isomirs.py to isomirs.cpython-313.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/exporter/vcf.py to vcf.cpython-313.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/exporter/__init__.py to __init__.cpython-313.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/gff/check.py to check.cpython-313.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/gff/validator.py to validator.cpython-313.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/gff/compare.py to compare.cpython-313.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/gff/update.py to update.cpython-313.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/gff/body.py to body.cpython-313.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/gff/__init__.py to __init__.cpython-313.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/gff/query.py to query.cpython-313.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/gff/gff_versions.py to gff_versions.cpython-313.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/gff/stats.py to stats.cpython-313.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/gff/classgff.py to classgff.cpython-313.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/gff/convert.py to convert.cpython-313.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/gff/merge.py to merge.cpython-313.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/gff/header.py to header.cpython-313.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/gff/read.py to read.cpython-313.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/libs/config.py to config.cpython-313.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/libs/sql.py to sql.cpython-313.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/libs/parse.py to parse.cpython-313.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/libs/spikeins.py to spikeins.cpython-313.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/libs/fastq.py to fastq.cpython-313.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/libs/do.py to do.cpython-313.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/libs/simulator.py to simulator.cpython-313.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/libs/utils.py to utils.cpython-313.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/libs/__init__.py to __init__.cpython-313.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/libs/logger.py to logger.cpython-313.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/libs/read.py to read.cpython-313.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/bam/filter.py to filter.cpython-313.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/bam/bam.py to bam.cpython-313.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/bam/__init__.py to __init__.cpython-313.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/mirna/mintplates.py to mintplates.cpython-313.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/mirna/annotate.py to annotate.cpython-313.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/mirna/fasta.py to fasta.cpython-313.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/mirna/realign.py to realign.cpython-313.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/mirna/keys.py to keys.cpython-313.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/mirna/mapper.py to mapper.cpython-313.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/mirna/snps.py to snps.cpython-313.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/mirna/__init__.py to __init__.cpython-313.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/install.py to install.cpython-313.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop/__init__.py to __init__.cpython-313.pyc running install_egg_info Copying mirtop.egg-info to /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.13/dist-packages/mirtop-0.4.28.egg-info Skipping SOURCES.txt running install_scripts Installing mirtop script to /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/bin I: pybuild base:311: /usr/bin/python3 setup.py install --root /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop /usr/lib/python3/dist-packages/setuptools/_distutils/dist.py:261: UserWarning: Unknown distribution option: 'test_suite' warnings.warn(msg) 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 copying mirtop/version.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop running egg_info writing mirtop.egg-info/PKG-INFO writing dependency_links to mirtop.egg-info/dependency_links.txt writing entry points to mirtop.egg-info/entry_points.txt writing top-level names to mirtop.egg-info/top_level.txt reading manifest file 'mirtop.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' adding license file 'LICENSE' writing manifest file 'mirtop.egg-info/SOURCES.txt' running install_lib creating /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages creating /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop creating /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/sql copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/sql/sql.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/sql copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/sql/__init__.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/sql copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/command_line.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/version.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop creating /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/importer copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/importer/manatee.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/importer copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/importer/seqbuster.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/importer copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/importer/srnabench.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/importer copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/importer/optimir.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/importer copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/importer/__init__.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/importer copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/importer/isomirsea.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/importer copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/importer/prost.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/importer creating /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/exporter copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/exporter/seqbuster.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/exporter copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/exporter/fasta.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/exporter copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/exporter/isomirs.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/exporter copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/exporter/vcf.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/exporter copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/exporter/__init__.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/exporter creating /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/gff copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/gff/check.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/gff copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/gff/validator.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/gff copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/gff/compare.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/gff copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/gff/update.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/gff copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/gff/body.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/gff copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/gff/__init__.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/gff copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/gff/query.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/gff copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/gff/gff_versions.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/gff copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/gff/stats.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/gff copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/gff/classgff.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/gff copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/gff/convert.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/gff copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/gff/merge.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/gff copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/gff/header.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/gff copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/gff/read.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/gff creating /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/libs copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/libs/config.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/libs copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/libs/sql.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/libs copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/libs/parse.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/libs copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/libs/spikeins.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/libs copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/libs/fastq.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/libs copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/libs/do.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/libs copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/libs/simulator.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/libs copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/libs/utils.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/libs copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/libs/__init__.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/libs copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/libs/logger.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/libs copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/libs/read.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/libs creating /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/bam copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/bam/filter.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/bam copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/bam/bam.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/bam copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/bam/__init__.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/bam creating /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/mirna copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/mirna/mintplates.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/mirna copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/mirna/annotate.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/mirna copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/mirna/fasta.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/mirna copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/mirna/realign.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/mirna copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/mirna/keys.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/mirna copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/mirna/mapper.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/mirna copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/mirna/snps.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/mirna copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/mirna/__init__.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/mirna copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/install.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop copying /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.12_mirtop/build/mirtop/__init__.py -> /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/sql/sql.py to sql.cpython-312.pyc /usr/lib/python3.12/dist-packages/mirtop/sql/sql.py:478: SyntaxWarning: invalid escape sequence '\(' byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/sql/__init__.py to __init__.cpython-312.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/command_line.py to command_line.cpython-312.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/version.py to version.cpython-312.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/importer/manatee.py to manatee.cpython-312.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/importer/seqbuster.py to seqbuster.cpython-312.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/importer/srnabench.py to srnabench.cpython-312.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/importer/optimir.py to optimir.cpython-312.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/importer/__init__.py to __init__.cpython-312.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/importer/isomirsea.py to isomirsea.cpython-312.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/importer/prost.py to prost.cpython-312.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/exporter/seqbuster.py to seqbuster.cpython-312.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/exporter/fasta.py to fasta.cpython-312.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/exporter/isomirs.py to isomirs.cpython-312.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/exporter/vcf.py to vcf.cpython-312.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/exporter/__init__.py to __init__.cpython-312.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/gff/check.py to check.cpython-312.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/gff/validator.py to validator.cpython-312.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/gff/compare.py to compare.cpython-312.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/gff/update.py to update.cpython-312.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/gff/body.py to body.cpython-312.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/gff/__init__.py to __init__.cpython-312.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/gff/query.py to query.cpython-312.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/gff/gff_versions.py to gff_versions.cpython-312.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/gff/stats.py to stats.cpython-312.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/gff/classgff.py to classgff.cpython-312.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/gff/convert.py to convert.cpython-312.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/gff/merge.py to merge.cpython-312.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/gff/header.py to header.cpython-312.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/gff/read.py to read.cpython-312.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/libs/config.py to config.cpython-312.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/libs/sql.py to sql.cpython-312.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/libs/parse.py to parse.cpython-312.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/libs/spikeins.py to spikeins.cpython-312.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/libs/fastq.py to fastq.cpython-312.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/libs/do.py to do.cpython-312.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/libs/simulator.py to simulator.cpython-312.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/libs/utils.py to utils.cpython-312.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/libs/__init__.py to __init__.cpython-312.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/libs/logger.py to logger.cpython-312.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/libs/read.py to read.cpython-312.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/bam/filter.py to filter.cpython-312.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/bam/bam.py to bam.cpython-312.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/bam/__init__.py to __init__.cpython-312.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/mirna/mintplates.py to mintplates.cpython-312.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/mirna/annotate.py to annotate.cpython-312.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/mirna/fasta.py to fasta.cpython-312.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/mirna/realign.py to realign.cpython-312.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/mirna/keys.py to keys.cpython-312.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/mirna/mapper.py to mapper.cpython-312.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/mirna/snps.py to snps.cpython-312.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/mirna/__init__.py to __init__.cpython-312.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/install.py to install.cpython-312.pyc byte-compiling /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop/__init__.py to __init__.cpython-312.pyc running install_egg_info Copying mirtop.egg-info to /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/lib/python3.12/dist-packages/mirtop-0.4.28.egg-info Skipping SOURCES.txt running install_scripts Installing mirtop script to /build/reproducible-path/mirtop-0.4.28/debian/python3-mirtop/usr/bin debian/rules override_dh_install make[1]: Entering directory '/build/reproducible-path/mirtop-0.4.28' dh_install install -m0755 -d debian/mirtop/usr/bin cp --reflink=auto -a ./debian/python3-mirtop/usr/bin/mirtop debian/mirtop/usr/bin/ rm debian/python3-mirtop/usr/bin/mirtop make[1]: Leaving directory '/build/reproducible-path/mirtop-0.4.28' dh_installdocs -O--buildsystem=pybuild install -m0755 -d debian/python3-mirtop/usr/share/doc/python3-mirtop install -m0755 -d debian/python3-mirtop/usr/share/doc/python3-mirtop cp --reflink=auto -a ./README.md debian/python3-mirtop/usr/share/doc/python3-mirtop cp --reflink=auto -a ./debian/README.test debian/python3-mirtop/usr/share/doc/python3-mirtop cp --reflink=auto -a ./debian/tests/run-unit-test debian/python3-mirtop/usr/share/doc/python3-mirtop chmod -R u\+rw,go=rX debian/python3-mirtop/usr/share/doc install -p -m0644 debian/copyright debian/python3-mirtop/usr/share/doc/python3-mirtop/copyright install -m0755 -d debian/mirtop/usr/share/doc/mirtop install -p -m0644 debian/copyright debian/mirtop/usr/share/doc/mirtop/copyright dh_sphinxdoc -O--buildsystem=pybuild dh_sphinxdoc: warning: Sphinx documentation not found dh_installchangelogs -O--buildsystem=pybuild install -m0755 -d debian/python3-mirtop/usr/share/doc/python3-mirtop install -p -m0644 debian/.debhelper/generated/python3-mirtop/dh_installchangelogs.dch.trimmed debian/python3-mirtop/usr/share/doc/python3-mirtop/changelog.Debian install -p -m0644 ./HISTORY.md debian/python3-mirtop/usr/share/doc/python3-mirtop/changelog install -m0755 -d debian/mirtop/usr/share/doc/mirtop install -p -m0644 debian/.debhelper/generated/mirtop/dh_installchangelogs.dch.trimmed debian/mirtop/usr/share/doc/mirtop/changelog.Debian install -p -m0644 ./HISTORY.md debian/mirtop/usr/share/doc/mirtop/changelog dh_installman -O--buildsystem=pybuild install -m0755 -d debian/mirtop/usr/share/man/man1/ install -p -m0644 ./build/man/mirtop.1 debian/mirtop/usr/share/man/man1/mirtop.1 man-recode --to-code UTF-8 --suffix .dh-new debian/mirtop/usr/share/man/man1/mirtop.1 mv debian/mirtop/usr/share/man/man1/mirtop.1.dh-new debian/mirtop/usr/share/man/man1/mirtop.1 chmod 0644 -- debian/mirtop/usr/share/man/man1/mirtop.1 dh_python3 -O--buildsystem=pybuild D: dh_python3 dh_python3:180: version: 6.20241024 D: dh_python3 dh_python3:181: argv: ['/usr/bin/dh_python3', '-O--buildsystem=pybuild'] D: dh_python3 dh_python3:182: options: Namespace(guess_deps=True, skip_private=False, verbose=True, arch=None, package=None, no_package=None, remaining_packages=False, compile_all=False, vrange=None, regexpr=None, accept_upstream_versions=False, depends=None, depends_section=None, recommends=None, recommends_section=None, suggests=None, suggests_section=None, requires=None, shebang=None, ignore_shebangs=False, clean_dbg_pkg=True, no_ext_rename=False, no_shebang_rewrite=False, private_dir=None, O=['--buildsystem=pybuild']) D: dh_python3 dh_python3:183: supported Python versions: 3.12,3.13 (default=3.12) D: dh_python3 debhelper:174: source=mirtop, binary packages=['python3-mirtop', 'mirtop'] D: dh_python3 dh_python3:205: processing package python3-mirtop... D: dh_python3 fs:50: moving files from debian/python3-mirtop/usr/lib/python3.12/dist-packages to debian/python3-mirtop/usr/lib/python3/dist-packages/ D: dh_python3 fs:50: moving files from debian/python3-mirtop/usr/lib/python3.13/dist-packages to debian/python3-mirtop/usr/lib/python3/dist-packages/ D: dh_python3 fs:338: package python3-mirtop details = {'requires.txt': set(), 'egg-info': {'debian/python3-mirtop/usr/lib/python3/dist-packages/mirtop-0.4.28.egg-info/PKG-INFO'}, 'dist-info': set(), 'nsp.txt': set(), 'shebangs': set(), 'public_vers': {Version('3')}, 'private_dirs': {}, 'compile': True, 'ext_vers': set(), 'ext_no_version': set()} D: dh_python3 depends:103: generating dependencies for package python3-mirtop D: dh_python3 depends:253: D={'python3:any'}; R=[]; S=[]; E=[], B=[]; RT=[] D: dh_python3 dh_python3:205: processing package mirtop... D: dh_python3 fs:338: package mirtop details = {'requires.txt': set(), 'egg-info': set(), 'dist-info': set(), 'nsp.txt': set(), 'shebangs': {/usr/bin/python3}, 'public_vers': set(), 'private_dirs': {}, 'compile': False, 'ext_vers': set(), 'ext_no_version': set()} D: dh_python3 depends:103: generating dependencies for package mirtop D: dh_python3 depends:253: D={'python3:any'}; R=[]; S=[]; E=[], B=[]; RT=[] dh_installsystemduser -O--buildsystem=pybuild dh_perl -O--buildsystem=pybuild dh_link -O--buildsystem=pybuild dh_strip_nondeterminism -O--buildsystem=pybuild dh_compress -O--buildsystem=pybuild cd debian/python3-mirtop cd debian/mirtop chmod a-x usr/share/doc/python3-mirtop/changelog usr/share/doc/python3-mirtop/changelog.Debian chmod a-x usr/share/doc/mirtop/changelog usr/share/doc/mirtop/changelog.Debian usr/share/man/man1/mirtop.1 gzip -9nf usr/share/doc/mirtop/changelog usr/share/doc/mirtop/changelog.Debian usr/share/man/man1/mirtop.1 gzip -9nf usr/share/doc/python3-mirtop/changelog usr/share/doc/python3-mirtop/changelog.Debian cd '/build/reproducible-path/mirtop-0.4.28' cd '/build/reproducible-path/mirtop-0.4.28' dh_fixperms -O--buildsystem=pybuild find debian/python3-mirtop ! -type l -a -true -a -true -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s find debian/mirtop ! -type l -a -true -a -true -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s find debian/mirtop/usr/share/doc -type f -a -true -a ! -regex 'debian/mirtop/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644 find debian/python3-mirtop/usr/share/doc -type f -a -true -a ! -regex 'debian/python3-mirtop/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644 find debian/python3-mirtop/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 find debian/mirtop/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 find debian/python3-mirtop -type f \( -name '*.so.*' -o -name '*.so' -o -name '*.la' -o -name '*.a' -o -name '*.js' -o -name '*.css' -o -name '*.scss' -o -name '*.sass' -o -name '*.jpeg' -o -name '*.jpg' -o -name '*.png' -o -name '*.gif' -o -name '*.cmxs' -o -name '*.node' \) -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/mirtop/usr/share/man -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/python3-mirtop/usr/lib -type f -name '*.ali' -a -true -a -true -print0 2>/dev/null | xargs -0r chmod uga-w find debian/mirtop -type f \( -name '*.so.*' -o -name '*.so' -o -name '*.la' -o -name '*.a' -o -name '*.js' -o -name '*.css' -o -name '*.scss' -o -name '*.sass' -o -name '*.jpeg' -o -name '*.jpg' -o -name '*.png' -o -name '*.gif' -o -name '*.cmxs' -o -name '*.node' \) -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/mirtop/usr/bin -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod a+x dh_missing -O--buildsystem=pybuild dh_installdeb -O--buildsystem=pybuild install -m0755 -d debian/python3-mirtop/DEBIAN printf '#!/bin/sh\nset -e\n' > debian/python3-mirtop/DEBIAN/postinst cat debian/python3-mirtop.postinst.debhelper >> debian/python3-mirtop/DEBIAN/postinst chmod 0755 -- debian/python3-mirtop/DEBIAN/postinst printf '#!/bin/sh\nset -e\n' > debian/python3-mirtop/DEBIAN/prerm cat debian/python3-mirtop.prerm.debhelper >> debian/python3-mirtop/DEBIAN/prerm chmod 0755 -- debian/python3-mirtop/DEBIAN/prerm install -m0755 -d debian/mirtop/DEBIAN dh_gencontrol -O--buildsystem=pybuild install -m0755 -d debian/mirtop/DEBIAN echo misc:Depends= >> debian/mirtop.substvars echo misc:Pre-Depends= >> debian/mirtop.substvars dpkg-gencontrol -pmirtop -ldebian/changelog -Tdebian/mirtop.substvars -cdebian/control -Pdebian/mirtop install -m0755 -d debian/python3-mirtop/DEBIAN echo misc:Depends= >> debian/python3-mirtop.substvars echo misc:Pre-Depends= >> debian/python3-mirtop.substvars dpkg-gencontrol -ppython3-mirtop -ldebian/changelog -Tdebian/python3-mirtop.substvars -cdebian/control -Pdebian/python3-mirtop chmod 0644 -- debian/mirtop/DEBIAN/control dpkg-gencontrol: warning: Depends field of package python3-mirtop: substitution variable ${sphinxdoc:Depends} used, but is not defined chmod 0644 -- debian/python3-mirtop/DEBIAN/control dh_md5sums -O--buildsystem=pybuild install -m0755 -d debian/mirtop/DEBIAN install -m0755 -d debian/python3-mirtop/DEBIAN cd debian/mirtop >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums cd debian/python3-mirtop >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums chmod 0644 -- debian/mirtop/DEBIAN/md5sums chmod 0644 -- debian/python3-mirtop/DEBIAN/md5sums dh_builddeb -O--buildsystem=pybuild dpkg-deb --root-owner-group --build debian/python3-mirtop .. dpkg-deb --root-owner-group --build debian/mirtop .. dpkg-deb: building package 'python3-mirtop' in '../python3-mirtop_0.4.28-1_all.deb'. dpkg-deb: building package 'mirtop' in '../mirtop_0.4.28-1_all.deb'. dpkg-genbuildinfo --build=binary -O../mirtop_0.4.28-1_amd64.buildinfo dpkg-genchanges --build=binary -O../mirtop_0.4.28-1_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-source: info: using options from mirtop-0.4.28/debian/source/options: --extend-diff-ignore=^[^/]*[.]egg-info/ 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/1873671 and its subdirectories I: Current time: Wed Nov 13 19:27:51 -12 2024 I: pbuilder-time-stamp: 1731569271 Thu Nov 14 07:27:52 UTC 2024 I: 1st build successful. Starting 2nd build on remote node infom02-amd64.debian.net. Thu Nov 14 07:27:52 UTC 2024 I: Preparing to do remote build '2' on infom02-amd64.debian.net. Thu Nov 14 07:31:58 UTC 2024 I: Deleting $TMPDIR on infom02-amd64.debian.net. Thu Nov 14 07:31:59 UTC 2024 I: mirtop_0.4.28-1_amd64.changes: Format: 1.8 Date: Sat, 12 Oct 2024 15:06:38 +0200 Source: mirtop Binary: mirtop python3-mirtop Architecture: all Version: 0.4.28-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Alexandre Detiste Description: mirtop - annotate miRNAs with a standard mirna/isomir naming python3-mirtop - annotate miRNAs with a standard mirna/isomir naming (Python 3) Closes: 1084347 Changes: mirtop (0.4.28-1) unstable; urgency=medium . * Team Upload. * New upstream version 0.4.28 * Add explicity dependency on python3-six (Closes: #1084347) . [ Andreas Tille ] * Add hint for better testing Checksums-Sha1: e9270f2c037a0f159aaecc42cb62b7f88d6664fb 16776 mirtop_0.4.28-1_all.deb 6bc771f27815833465b4728ffaea04d675ac0ae9 9619 mirtop_0.4.28-1_amd64.buildinfo 31f62276432c36a39d09573efc3e3acdcd214304 61104 python3-mirtop_0.4.28-1_all.deb Checksums-Sha256: 56dc51701d5f08e11b9133f97ecd082c3e003c99f0768b3bf166d2655cacb7ac 16776 mirtop_0.4.28-1_all.deb 1a2b886d90d5623da12ff356443bad486196057bcaea5cb88661af65c5c47527 9619 mirtop_0.4.28-1_amd64.buildinfo f6d576195306326c391a976c152a929d9de51a4342b8b652302346b9ffcb2256 61104 python3-mirtop_0.4.28-1_all.deb Files: d2dd3d799052994ebd5ddf161592ea80 16776 science optional mirtop_0.4.28-1_all.deb ab5e81da46153bfb6c2b47f1ebf95432 9619 science optional mirtop_0.4.28-1_amd64.buildinfo a7202688afc473d768268417dd654996 61104 python optional python3-mirtop_0.4.28-1_all.deb Thu Nov 14 07:32:00 UTC 2024 I: diffoscope 283 will be used to compare the two builds: Running as unit: rb-diffoscope-amd64_35-34539.service # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.R4UFKVFz/mirtop_0.4.28-1.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.R4UFKVFz/mirtop_0.4.28-1.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.R4UFKVFz/mirtop_0.4.28-1.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.R4UFKVFz/b1/mirtop_0.4.28-1_amd64.changes /srv/reproducible-results/rbuild-debian/r-b-build.R4UFKVFz/b2/mirtop_0.4.28-1_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: 0.380s) 0.380s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.017s) 0.017s 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: 712ms CPU time consumed: 712ms Thu Nov 14 07:32:01 UTC 2024 I: diffoscope 283 found no differences in the changes files, and a .buildinfo file also exists. Thu Nov 14 07:32:01 UTC 2024 I: mirtop from unstable built successfully and reproducibly on amd64. Thu Nov 14 07:32:02 UTC 2024 I: Submitting .buildinfo files to external archives: Thu Nov 14 07:32:02 UTC 2024 I: Submitting 12K b1/mirtop_0.4.28-1_amd64.buildinfo.asc Thu Nov 14 07:32:03 UTC 2024 I: Submitting 12K b2/mirtop_0.4.28-1_amd64.buildinfo.asc Thu Nov 14 07:32:04 UTC 2024 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Thu Nov 14 07:32:04 UTC 2024 I: Done submitting .buildinfo files. Thu Nov 14 07:32:04 UTC 2024 I: Removing signed mirtop_0.4.28-1_amd64.buildinfo.asc files: removed './b1/mirtop_0.4.28-1_amd64.buildinfo.asc' removed './b2/mirtop_0.4.28-1_amd64.buildinfo.asc'