Mon Apr 24 15:27:37 UTC 2023 I: starting to build tombo/bookworm/i386 on jenkins on '2023-04-24 15:25' Mon Apr 24 15:27:37 UTC 2023 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/i386_11/16069/console.log Mon Apr 24 15:27:37 UTC 2023 I: Downloading source for bookworm/tombo=1.5.1-4 --2023-04-24 15:27:38-- http://cdn-fastly.deb.debian.org/debian/pool/main/t/tombo/tombo_1.5.1-4.dsc Connecting to 78.137.99.97:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2292 (2.2K) [text/prs.lines.tag] Saving to: ‘tombo_1.5.1-4.dsc’ 0K .. 100% 195M=0s 2023-04-24 15:27:38 (195 MB/s) - ‘tombo_1.5.1-4.dsc’ saved [2292/2292] Mon Apr 24 15:27:38 UTC 2023 I: tombo_1.5.1-4.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA256 Format: 3.0 (quilt) Source: tombo Binary: tombo, tombo-doc Architecture: any all Version: 1.5.1-4 Maintainer: Debian Med Packaging Team Uploaders: Andreas Tille Homepage: https://github.com/nanoporetech/tombo Standards-Version: 4.6.1 Vcs-Browser: https://salsa.debian.org/med-team/tombo Vcs-Git: https://salsa.debian.org/med-team/tombo.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 13), dh-python, python3-all-dev, python3-setuptools, cython3, sphinx-doc, python3-sphinx, python3-sphinx-rtd-theme, python3-sphinx-argparse, libjs-mathjax, python3-h5py , python3-mappy , python3-numpy , python3-scipy , python3-tqdm , python3-nose2 Package-List: tombo deb science optional arch=any tombo-doc deb doc optional arch=all Checksums-Sha1: 94f33539552d8c2f7e6c06987fd264400fc17f84 22294835 tombo_1.5.1.orig.tar.gz a0c233a81dd497af34853fe1b2c83ec6425576fa 6468 tombo_1.5.1-4.debian.tar.xz Checksums-Sha256: f5f7ce37baee40b851ea867c2b835e6eae324ef90bdeb23fb931fde3272769a0 22294835 tombo_1.5.1.orig.tar.gz ae312d3da913b7917e162c9f752bad5a7c997227dc9afd4af8497e18beba9b31 6468 tombo_1.5.1-4.debian.tar.xz Files: 3709e4f4d6f4c58ec2d6ae216059929c 22294835 tombo_1.5.1.orig.tar.gz 6fb5990f86dd4fdf1a199c3f9a21ee9d 6468 tombo_1.5.1-4.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCAAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAmOGYzMRHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtEN6RAAhXPBXZnGXQu4WadXE8wxsomDeq71/LmK 5TpNfRrv9qLyZ3oezgQtHNeWS0WU7GyK5QxkyJj5YnFb/cKIreAJmKN7m7UAgJ8M C5xBVxsJUL1EuoBxZ2XRgORuGgQT1GnzNbWY02/T7DRB0KC/74AwB1GOkmMM47t9 qUHg+Nh5sBTLrftXCldzXml+nHPXsZf772y2ElGKnxHQIs7WOeAhJ6zA5miYw6Uw NaVnzktaUTTxvKLTBZ+YKCh/wKgWY1P+/gC56WXcVU5REKVtcbp4bfQaUVGO6veI o2OQoAd5EUyBlYFW+o3lxA+PJtz1Q7YNux3M79xd2STpZqggzNKdZwaHM/ZIbmxT u0tr3l7qyEI32I04Qh04U+a5r2MtW7rp+2F5XT2jYlQYXZCUlD4uZliUN/LLN4b9 A/gx6HaOR7M9AOgGfGV9vSgeNYlmZr42G2J1yfDNowaUZNilk5SchZgiPENzi/Iy AISbw4bxLOewg3VSvPQlgIXeJForL5F4X2mq2HWN2lnuKl5s9HKOUNmY5Bst/iMP oOvecyTH+vu3f/oB2MWoX+vDJcBo1H2AGh/3zvsNKwopzYdSZ8r/82ARdzKnv4bS PUxwyPmXUp1viHXWDPUjg7JpmoEHoKnBlKaH2/CteeHoJSM9owjcJ3e+TLLg49sS WJN1B0n+WEo= =Y4BK -----END PGP SIGNATURE----- Mon Apr 24 15:27:38 UTC 2023 I: Checking whether the package is not for us Mon Apr 24 15:27:38 UTC 2023 I: Starting 1st build on remote node ionos2-i386.debian.net. Mon Apr 24 15:27:38 UTC 2023 I: Preparing to do remote build '1' on ionos2-i386.debian.net. Mon Apr 24 15:35:25 UTC 2023 I: Deleting $TMPDIR on ionos2-i386.debian.net. W: cgroups are not available on the host, not using them. I: pbuilder: network access will be disabled during build I: Current time: Mon Apr 24 03:31:40 -12 2023 I: pbuilder-time-stamp: 1682350300 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/bookworm-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: using eatmydata during job I: Copying source file I: copying [tombo_1.5.1-4.dsc] I: copying [./tombo_1.5.1.orig.tar.gz] I: copying [./tombo_1.5.1-4.debian.tar.xz] I: Extracting source gpgv: Signature made Tue Nov 29 07:53:23 2022 -12 gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./tombo_1.5.1-4.dsc: no acceptable signature found dpkg-source: info: extracting tombo in tombo-1.5.1 dpkg-source: info: unpacking tombo_1.5.1.orig.tar.gz dpkg-source: info: unpacking tombo_1.5.1-4.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying no_future.patch dpkg-source: info: applying 2to3.patch dpkg-source: info: applying mathjax.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/19366/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='i386' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=8' DISTRIBUTION='bookworm' HOME='/root' HOST_ARCH='i386' IFS=' ' LANG='C' LANGUAGE='en_US:en' LC_ALL='C' LD_LIBRARY_PATH='/usr/lib/libeatmydata' LD_PRELOAD='libeatmydata.so' 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='19366' 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.wczM5j6T/pbuilderrc_HUzu --distribution bookworm --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bookworm-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.wczM5j6T/b1 --logfile b1/build.log tombo_1.5.1-4.dsc' SUDO_GID='112' SUDO_UID='107' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/sbin/chroot' http_proxy='http://78.137.99.97:3128' I: uname -a Linux ionos2-i386 5.10.0-21-686-pae #1 SMP Debian 5.10.162-1 (2023-01-21) i686 GNU/Linux I: ls -l /bin total 6036 -rwxr-xr-x 1 root root 1408088 Feb 12 08:21 bash -rwxr-xr-x 3 root root 38404 Sep 18 2022 bunzip2 -rwxr-xr-x 3 root root 38404 Sep 18 2022 bzcat lrwxrwxrwx 1 root root 6 Sep 18 2022 bzcmp -> bzdiff -rwxr-xr-x 1 root root 2225 Sep 18 2022 bzdiff lrwxrwxrwx 1 root root 6 Sep 18 2022 bzegrep -> bzgrep -rwxr-xr-x 1 root root 4893 Nov 27 2021 bzexe lrwxrwxrwx 1 root root 6 Sep 18 2022 bzfgrep -> bzgrep -rwxr-xr-x 1 root root 3775 Sep 18 2022 bzgrep -rwxr-xr-x 3 root root 38404 Sep 18 2022 bzip2 -rwxr-xr-x 1 root root 17892 Sep 18 2022 bzip2recover lrwxrwxrwx 1 root root 6 Sep 18 2022 bzless -> bzmore -rwxr-xr-x 1 root root 1297 Sep 18 2022 bzmore -rwxr-xr-x 1 root root 42920 Sep 20 2022 cat -rwxr-xr-x 1 root root 79816 Sep 20 2022 chgrp -rwxr-xr-x 1 root root 67496 Sep 20 2022 chmod -rwxr-xr-x 1 root root 79816 Sep 20 2022 chown -rwxr-xr-x 1 root root 162024 Sep 20 2022 cp -rwxr-xr-x 1 root root 136916 Jan 5 01:20 dash -rwxr-xr-x 1 root root 137160 Sep 20 2022 date -rwxr-xr-x 1 root root 100364 Sep 20 2022 dd -rwxr-xr-x 1 root root 108940 Sep 20 2022 df -rwxr-xr-x 1 root root 162152 Sep 20 2022 dir -rwxr-xr-x 1 root root 87760 Mar 22 22:20 dmesg lrwxrwxrwx 1 root root 8 Dec 19 01:33 dnsdomainname -> hostname lrwxrwxrwx 1 root root 8 Dec 19 01:33 domainname -> hostname -rwxr-xr-x 1 root root 38760 Sep 20 2022 echo -rwxr-xr-x 1 root root 41 Jan 24 02:43 egrep -rwxr-xr-x 1 root root 34664 Sep 20 2022 false -rwxr-xr-x 1 root root 41 Jan 24 02:43 fgrep -rwxr-xr-x 1 root root 84272 Mar 22 22:20 findmnt -rwsr-xr-x 1 root root 30240 Mar 22 20:38 fusermount -rwxr-xr-x 1 root root 218680 Jan 24 02:43 grep -rwxr-xr-x 2 root root 2346 Apr 9 2022 gunzip -rwxr-xr-x 1 root root 6447 Apr 9 2022 gzexe -rwxr-xr-x 1 root root 100952 Apr 9 2022 gzip -rwxr-xr-x 1 root root 21916 Dec 19 01:33 hostname -rwxr-xr-x 1 root root 75756 Sep 20 2022 ln -rwxr-xr-x 1 root root 55600 Mar 22 23:43 login -rwxr-xr-x 1 root root 162152 Sep 20 2022 ls -rwxr-xr-x 1 root root 214568 Mar 22 22:20 lsblk -rwxr-xr-x 1 root root 96328 Sep 20 2022 mkdir -rwxr-xr-x 1 root root 84008 Sep 20 2022 mknod -rwxr-xr-x 1 root root 38792 Sep 20 2022 mktemp -rwxr-xr-x 1 root root 63016 Mar 22 22:20 more -rwsr-xr-x 1 root root 58912 Mar 22 22:20 mount -rwxr-xr-x 1 root root 13856 Mar 22 22:20 mountpoint -rwxr-xr-x 1 root root 157932 Sep 20 2022 mv lrwxrwxrwx 1 root root 8 Dec 19 01:33 nisdomainname -> hostname lrwxrwxrwx 1 root root 14 Apr 2 18:25 pidof -> /sbin/killall5 -rwxr-xr-x 1 root root 38792 Sep 20 2022 pwd lrwxrwxrwx 1 root root 4 Feb 12 08:21 rbash -> bash -rwxr-xr-x 1 root root 51080 Sep 20 2022 readlink -rwxr-xr-x 1 root root 75720 Sep 20 2022 rm -rwxr-xr-x 1 root root 51080 Sep 20 2022 rmdir -rwxr-xr-x 1 root root 22308 Nov 2 04:31 run-parts -rwxr-xr-x 1 root root 133224 Jan 5 07:55 sed lrwxrwxrwx 1 root root 4 Jan 5 01:20 sh -> dash -rwxr-xr-x 1 root root 38760 Sep 20 2022 sleep -rwxr-xr-x 1 root root 87976 Sep 20 2022 stty -rwsr-xr-x 1 root root 83492 Mar 22 22:20 su -rwxr-xr-x 1 root root 38792 Sep 20 2022 sync -rwxr-xr-x 1 root root 598456 Apr 6 02:25 tar -rwxr-xr-x 1 root root 13860 Nov 2 04:31 tempfile -rwxr-xr-x 1 root root 120776 Sep 20 2022 touch -rwxr-xr-x 1 root root 34664 Sep 20 2022 true -rwxr-xr-x 1 root root 17892 Mar 22 20:38 ulockmgr_server -rwsr-xr-x 1 root root 30236 Mar 22 22:20 umount -rwxr-xr-x 1 root root 38760 Sep 20 2022 uname -rwxr-xr-x 2 root root 2346 Apr 9 2022 uncompress -rwxr-xr-x 1 root root 162152 Sep 20 2022 vdir -rwxr-xr-x 1 root root 71216 Mar 22 22:20 wdctl lrwxrwxrwx 1 root root 8 Dec 19 01:33 ypdomainname -> hostname -rwxr-xr-x 1 root root 1984 Apr 9 2022 zcat -rwxr-xr-x 1 root root 1678 Apr 9 2022 zcmp -rwxr-xr-x 1 root root 6460 Apr 9 2022 zdiff -rwxr-xr-x 1 root root 29 Apr 9 2022 zegrep -rwxr-xr-x 1 root root 29 Apr 9 2022 zfgrep -rwxr-xr-x 1 root root 2081 Apr 9 2022 zforce -rwxr-xr-x 1 root root 8103 Apr 9 2022 zgrep -rwxr-xr-x 1 root root 2206 Apr 9 2022 zless -rwxr-xr-x 1 root root 1842 Apr 9 2022 zmore -rwxr-xr-x 1 root root 4577 Apr 9 2022 znew I: user script /srv/workspace/pbuilder/19366/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: i386 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13), dh-python, python3-all-dev, python3-setuptools, cython3, sphinx-doc, python3-sphinx, python3-sphinx-rtd-theme, python3-sphinx-argparse, libjs-mathjax, python3-h5py, python3-mappy, python3-numpy, python3-scipy, python3-tqdm, python3-nose2 dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19604 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on dh-python; however: Package dh-python is not installed. pbuilder-satisfydepends-dummy depends on python3-all-dev; however: Package python3-all-dev is not installed. pbuilder-satisfydepends-dummy depends on python3-setuptools; however: Package python3-setuptools is not installed. pbuilder-satisfydepends-dummy depends on cython3; however: Package cython3 is not installed. pbuilder-satisfydepends-dummy depends on sphinx-doc; however: Package sphinx-doc is not installed. pbuilder-satisfydepends-dummy depends on python3-sphinx; however: Package python3-sphinx is not installed. pbuilder-satisfydepends-dummy depends on python3-sphinx-rtd-theme; however: Package python3-sphinx-rtd-theme is not installed. pbuilder-satisfydepends-dummy depends on python3-sphinx-argparse; however: Package python3-sphinx-argparse is not installed. pbuilder-satisfydepends-dummy depends on libjs-mathjax; however: Package libjs-mathjax is not installed. pbuilder-satisfydepends-dummy depends on python3-h5py; however: Package python3-h5py is not installed. pbuilder-satisfydepends-dummy depends on python3-mappy; however: Package python3-mappy is not installed. pbuilder-satisfydepends-dummy depends on python3-numpy; however: Package python3-numpy is not installed. pbuilder-satisfydepends-dummy depends on python3-scipy; however: Package python3-scipy is not installed. pbuilder-satisfydepends-dummy depends on python3-tqdm; however: Package python3-tqdm is not installed. pbuilder-satisfydepends-dummy depends on python3-nose2; however: Package python3-nose2 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} cython3{a} debhelper{a} dh-autoreconf{a} dh-python{a} dh-strip-nondeterminism{a} docutils-common{a} docutils-doc{a} dwz{a} file{a} fonts-font-awesome{a} fonts-lato{a} fonts-mathjax{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libaec0{a} libarchive-zip-perl{a} libblas3{a} libboost-dev{a} libboost1.74-dev{a} libbrotli1{a} libcurl4{a} libdebhelper-perl{a} libelf1{a} libexpat1{a} libexpat1-dev{a} libfile-stripnondeterminism-perl{a} libgfortran5{a} libhdf5-103-1{a} libhdf5-hl-100{a} libicu72{a} libjs-jquery{a} libjs-mathjax{a} libjs-sphinxdoc{a} libjs-underscore{a} libjson-perl{a} liblapack3{a} liblbfgsb0{a} libldap-2.5-0{a} liblzf1{a} libmagic-mgc{a} libmagic1{a} libnghttp2-14{a} libopenblas-dev{a} libopenblas-pthread-dev{a} libopenblas0{a} libopenblas0-pthread{a} libpipeline1{a} libpsl5{a} libpython3-all-dev{a} libpython3-dev{a} libpython3-stdlib{a} libpython3.11{a} libpython3.11-dev{a} libpython3.11-minimal{a} libpython3.11-stdlib{a} libreadline8{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libssh2-1{a} libsub-override-perl{a} libsz2{a} libtool{a} libuchardet0{a} libxml2{a} libxsimd-dev{a} m4{a} man-db{a} media-types{a} openssl{a} po-debconf{a} python-babel-localedata{a} python-requests-doc{a} python3{a} python3-alabaster{a} python3-all{a} python3-all-dev{a} python3-babel{a} python3-beniget{a} python3-certifi{a} python3-chardet{a} python3-charset-normalizer{a} python3-decorator{a} python3-dev{a} python3-distutils{a} python3-doc{a} python3-docutils{a} python3-gast{a} python3-h5py{a} python3-h5py-serial{a} python3-idna{a} python3-imagesize{a} python3-jinja2{a} python3-lib2to3{a} python3-mappy{a} python3-markupsafe{a} python3-minimal{a} python3-nose2{a} python3-numpy{a} python3-packaging{a} python3-pkg-resources{a} python3-ply{a} python3-pygments{a} python3-pythran{a} python3-requests{a} python3-roman{a} python3-scipy{a} python3-setuptools{a} python3-six{a} python3-snowballstemmer{a} python3-sphinx{a} python3-sphinx-argparse{a} python3-sphinx-rtd-theme{a} python3-tqdm{a} python3-tz{a} python3-urllib3{a} python3.11{a} python3.11-dev{a} python3.11-doc{a} python3.11-minimal{a} readline-common{a} sensible-utils{a} sgml-base{a} sphinx-common{a} sphinx-doc{a} sphinx-rtd-theme-common{a} xml-core{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: curl javascript-common libarchive-cpio-perl libjson-xs-perl libldap-common libltdl-dev libmail-sendmail-perl libpaper-utils libsasl2-modules lynx publicsuffix python3-pil wget 0 packages upgraded, 136 newly installed, 0 to remove and 0 not upgraded. Need to get 122 MB of archives. After unpacking 674 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian bookworm/main i386 fonts-lato all 2.0-2.1 [2696 kB] Get: 2 http://deb.debian.org/debian bookworm/main i386 libpython3.11-minimal i386 3.11.2-6 [813 kB] Get: 3 http://deb.debian.org/debian bookworm/main i386 libexpat1 i386 2.5.0-1 [103 kB] Get: 4 http://deb.debian.org/debian bookworm/main i386 python3.11-minimal i386 3.11.2-6 [2130 kB] Get: 5 http://deb.debian.org/debian bookworm/main i386 python3-minimal i386 3.11.2-1+b1 [26.3 kB] Get: 6 http://deb.debian.org/debian bookworm/main i386 media-types all 10.0.0 [26.1 kB] Get: 7 http://deb.debian.org/debian bookworm/main i386 readline-common all 8.2-1.3 [69.0 kB] Get: 8 http://deb.debian.org/debian bookworm/main i386 libreadline8 i386 8.2-1.3 [171 kB] Get: 9 http://deb.debian.org/debian bookworm/main i386 libpython3.11-stdlib i386 3.11.2-6 [1799 kB] Get: 10 http://deb.debian.org/debian bookworm/main i386 python3.11 i386 3.11.2-6 [572 kB] Get: 11 http://deb.debian.org/debian bookworm/main i386 libpython3-stdlib i386 3.11.2-1+b1 [9308 B] Get: 12 http://deb.debian.org/debian bookworm/main i386 python3 i386 3.11.2-1+b1 [26.3 kB] Get: 13 http://deb.debian.org/debian bookworm/main i386 sgml-base all 1.31 [15.4 kB] Get: 14 http://deb.debian.org/debian bookworm/main i386 sensible-utils all 0.0.17+nmu1 [19.0 kB] Get: 15 http://deb.debian.org/debian bookworm/main i386 openssl i386 3.0.8-1 [1412 kB] Get: 16 http://deb.debian.org/debian bookworm/main i386 ca-certificates all 20230311 [153 kB] Get: 17 http://deb.debian.org/debian bookworm/main i386 libmagic-mgc i386 1:5.44-3 [305 kB] Get: 18 http://deb.debian.org/debian bookworm/main i386 libmagic1 i386 1:5.44-3 [114 kB] Get: 19 http://deb.debian.org/debian bookworm/main i386 file i386 1:5.44-3 [42.5 kB] Get: 20 http://deb.debian.org/debian bookworm/main i386 gettext-base i386 0.21-12 [162 kB] Get: 21 http://deb.debian.org/debian bookworm/main i386 libuchardet0 i386 0.0.7-1 [67.9 kB] Get: 22 http://deb.debian.org/debian bookworm/main i386 groff-base i386 1.22.4-10 [932 kB] Get: 23 http://deb.debian.org/debian bookworm/main i386 bsdextrautils i386 2.38.1-5+b1 [90.3 kB] Get: 24 http://deb.debian.org/debian bookworm/main i386 libpipeline1 i386 1.5.7-1 [40.0 kB] Get: 25 http://deb.debian.org/debian bookworm/main i386 man-db i386 2.11.2-2 [1397 kB] Get: 26 http://deb.debian.org/debian bookworm/main i386 m4 i386 1.4.19-3 [294 kB] Get: 27 http://deb.debian.org/debian bookworm/main i386 autoconf all 2.71-3 [332 kB] Get: 28 http://deb.debian.org/debian bookworm/main i386 autotools-dev all 20220109.1 [51.6 kB] Get: 29 http://deb.debian.org/debian bookworm/main i386 automake all 1:1.16.5-1.3 [823 kB] Get: 30 http://deb.debian.org/debian bookworm/main i386 autopoint all 0.21-12 [495 kB] Get: 31 http://deb.debian.org/debian bookworm/main i386 cython3 i386 0.29.32-2+b1 [1297 kB] Get: 32 http://deb.debian.org/debian bookworm/main i386 libdebhelper-perl all 13.11.4 [81.2 kB] Get: 33 http://deb.debian.org/debian bookworm/main i386 libtool all 2.4.7-5 [517 kB] Get: 34 http://deb.debian.org/debian bookworm/main i386 dh-autoreconf all 20 [17.1 kB] Get: 35 http://deb.debian.org/debian bookworm/main i386 libarchive-zip-perl all 1.68-1 [104 kB] Get: 36 http://deb.debian.org/debian bookworm/main i386 libsub-override-perl all 0.09-4 [9304 B] Get: 37 http://deb.debian.org/debian bookworm/main i386 libfile-stripnondeterminism-perl all 1.13.1-1 [19.4 kB] Get: 38 http://deb.debian.org/debian bookworm/main i386 dh-strip-nondeterminism all 1.13.1-1 [8620 B] Get: 39 http://deb.debian.org/debian bookworm/main i386 libelf1 i386 0.188-2.1 [179 kB] Get: 40 http://deb.debian.org/debian bookworm/main i386 dwz i386 0.15-1 [118 kB] Get: 41 http://deb.debian.org/debian bookworm/main i386 libicu72 i386 72.1-3 [9541 kB] Get: 42 http://deb.debian.org/debian bookworm/main i386 libxml2 i386 2.9.14+dfsg-1.2 [720 kB] Get: 43 http://deb.debian.org/debian bookworm/main i386 gettext i386 0.21-12 [1311 kB] Get: 44 http://deb.debian.org/debian bookworm/main i386 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 45 http://deb.debian.org/debian bookworm/main i386 po-debconf all 1.0.21+nmu1 [248 kB] Get: 46 http://deb.debian.org/debian bookworm/main i386 debhelper all 13.11.4 [942 kB] Get: 47 http://deb.debian.org/debian bookworm/main i386 python3-lib2to3 all 3.11.2-2 [76.2 kB] Get: 48 http://deb.debian.org/debian bookworm/main i386 python3-distutils all 3.11.2-2 [131 kB] Get: 49 http://deb.debian.org/debian bookworm/main i386 dh-python all 5.20230130 [104 kB] Get: 50 http://deb.debian.org/debian bookworm/main i386 xml-core all 0.18+nmu1 [23.8 kB] Get: 51 http://deb.debian.org/debian bookworm/main i386 docutils-common all 0.19+dfsg-6 [127 kB] Get: 52 http://deb.debian.org/debian bookworm/main i386 docutils-doc all 0.19+dfsg-6 [1098 kB] Get: 53 http://deb.debian.org/debian bookworm/main i386 fonts-font-awesome all 5.0.10+really4.7.0~dfsg-4.1 [517 kB] Get: 54 http://deb.debian.org/debian bookworm/main i386 fonts-mathjax all 2.7.9+dfsg-1 [2210 kB] Get: 55 http://deb.debian.org/debian bookworm/main i386 libaec0 i386 1.0.6-1+b1 [22.4 kB] Get: 56 http://deb.debian.org/debian bookworm/main i386 libblas3 i386 3.11.0-2 [139 kB] Get: 57 http://deb.debian.org/debian bookworm/main i386 libboost1.74-dev i386 1.74.0+ds1-20 [9510 kB] Get: 58 http://deb.debian.org/debian bookworm/main i386 libboost-dev i386 1.74.0.3 [4548 B] Get: 59 http://deb.debian.org/debian bookworm/main i386 libbrotli1 i386 1.0.9-2+b6 [275 kB] Get: 60 http://deb.debian.org/debian bookworm/main i386 libsasl2-modules-db i386 2.1.28+dfsg-10 [21.4 kB] Get: 61 http://deb.debian.org/debian bookworm/main i386 libsasl2-2 i386 2.1.28+dfsg-10 [62.7 kB] Get: 62 http://deb.debian.org/debian bookworm/main i386 libldap-2.5-0 i386 2.5.13+dfsg-5 [196 kB] Get: 63 http://deb.debian.org/debian bookworm/main i386 libnghttp2-14 i386 1.52.0-1 [79.8 kB] Get: 64 http://deb.debian.org/debian bookworm/main i386 libpsl5 i386 0.21.2-1 [59.3 kB] Get: 65 http://deb.debian.org/debian bookworm/main i386 librtmp1 i386 2.4+20151223.gitfa8646d.1-2+b2 [64.3 kB] Get: 66 http://deb.debian.org/debian bookworm/main i386 libssh2-1 i386 1.10.0-3+b1 [187 kB] Get: 67 http://deb.debian.org/debian bookworm/main i386 libcurl4 i386 7.88.1-8 [419 kB] Get: 68 http://deb.debian.org/debian bookworm/main i386 libexpat1-dev i386 2.5.0-1 [158 kB] Get: 69 http://deb.debian.org/debian bookworm/main i386 libgfortran5 i386 12.2.0-14 [698 kB] Get: 70 http://deb.debian.org/debian bookworm/main i386 libsz2 i386 1.0.6-1+b1 [7884 B] Get: 71 http://deb.debian.org/debian bookworm/main i386 libhdf5-103-1 i386 1.10.8+repack1-1 [1175 kB] Get: 72 http://deb.debian.org/debian bookworm/main i386 libhdf5-hl-100 i386 1.10.8+repack1-1 [79.3 kB] Get: 73 http://deb.debian.org/debian bookworm/main i386 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [326 kB] Get: 74 http://deb.debian.org/debian bookworm/main i386 libjs-mathjax all 2.7.9+dfsg-1 [5667 kB] Get: 75 http://deb.debian.org/debian bookworm/main i386 libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [116 kB] Get: 76 http://deb.debian.org/debian bookworm/main i386 libjs-sphinxdoc all 5.3.0-4 [130 kB] Get: 77 http://deb.debian.org/debian bookworm/main i386 libjson-perl all 4.10000-1 [87.5 kB] Get: 78 http://deb.debian.org/debian bookworm/main i386 libopenblas0-pthread i386 0.3.21+ds-4 [5148 kB] Get: 79 http://deb.debian.org/debian bookworm/main i386 liblapack3 i386 3.11.0-2 [2092 kB] Get: 80 http://deb.debian.org/debian bookworm/main i386 liblbfgsb0 i386 3.0+dfsg.4-1 [28.5 kB] Get: 81 http://deb.debian.org/debian bookworm/main i386 liblzf1 i386 3.6-3 [9668 B] Get: 82 http://deb.debian.org/debian bookworm/main i386 libopenblas0 i386 0.3.21+ds-4 [32.6 kB] Get: 83 http://deb.debian.org/debian bookworm/main i386 libopenblas-pthread-dev i386 0.3.21+ds-4 [3447 kB] Get: 84 http://deb.debian.org/debian bookworm/main i386 libopenblas-dev i386 0.3.21+ds-4 [44.9 kB] Get: 85 http://deb.debian.org/debian bookworm/main i386 libpython3.11 i386 3.11.2-6 [2013 kB] Get: 86 http://deb.debian.org/debian bookworm/main i386 zlib1g-dev i386 1:1.2.13.dfsg-1 [913 kB] Get: 87 http://deb.debian.org/debian bookworm/main i386 libpython3.11-dev i386 3.11.2-6 [4906 kB] Get: 88 http://deb.debian.org/debian bookworm/main i386 libpython3-dev i386 3.11.2-1+b1 [9580 B] Get: 89 http://deb.debian.org/debian bookworm/main i386 libpython3-all-dev i386 3.11.2-1+b1 [1068 B] Get: 90 http://deb.debian.org/debian bookworm/main i386 libxsimd-dev i386 8.1.0-7 [88.8 kB] Get: 91 http://deb.debian.org/debian bookworm/main i386 python-babel-localedata all 2.10.3-1 [5615 kB] Get: 92 http://deb.debian.org/debian bookworm/main i386 python-requests-doc all 2.28.1+dfsg-1 [183 kB] Get: 93 http://deb.debian.org/debian bookworm/main i386 python3-alabaster all 0.7.12-1 [20.8 kB] Get: 94 http://deb.debian.org/debian bookworm/main i386 python3-all i386 3.11.2-1+b1 [1056 B] Get: 95 http://deb.debian.org/debian bookworm/main i386 python3.11-dev i386 3.11.2-6 [615 kB] Get: 96 http://deb.debian.org/debian bookworm/main i386 python3-dev i386 3.11.2-1+b1 [26.2 kB] Get: 97 http://deb.debian.org/debian bookworm/main i386 python3-all-dev i386 3.11.2-1+b1 [1072 B] Get: 98 http://deb.debian.org/debian bookworm/main i386 python3-pkg-resources all 66.1.1-1 [296 kB] Get: 99 http://deb.debian.org/debian bookworm/main i386 python3-tz all 2022.7.1-3 [30.1 kB] Get: 100 http://deb.debian.org/debian bookworm/main i386 python3-babel all 2.10.3-1 [103 kB] Get: 101 http://deb.debian.org/debian bookworm/main i386 python3-gast all 0.5.2-2 [9364 B] Get: 102 http://deb.debian.org/debian bookworm/main i386 python3-beniget all 0.4.1-3 [9920 B] Get: 103 http://deb.debian.org/debian bookworm/main i386 python3-certifi all 2022.9.24-1 [153 kB] Get: 104 http://deb.debian.org/debian bookworm/main i386 python3-chardet all 5.1.0+dfsg-2 [110 kB] Get: 105 http://deb.debian.org/debian bookworm/main i386 python3-charset-normalizer all 3.0.1-2 [49.3 kB] Get: 106 http://deb.debian.org/debian bookworm/main i386 python3-decorator all 5.1.1-3 [14.9 kB] Get: 107 http://deb.debian.org/debian bookworm/main i386 python3.11-doc all 3.11.2-6 [12.6 MB] Get: 108 http://deb.debian.org/debian bookworm/main i386 python3-doc all 3.11.2-1 [9208 B] Get: 109 http://deb.debian.org/debian bookworm/main i386 python3-roman all 3.3-3 [9880 B] Get: 110 http://deb.debian.org/debian bookworm/main i386 python3-docutils all 0.19+dfsg-6 [382 kB] Get: 111 http://deb.debian.org/debian bookworm/main i386 python3-numpy i386 1:1.24.2-1 [6115 kB] Get: 112 http://deb.debian.org/debian bookworm/main i386 python3-h5py-serial i386 3.7.0-8 [810 kB] Get: 113 http://deb.debian.org/debian bookworm/main i386 python3-h5py all 3.7.0-8 [10.3 kB] Get: 114 http://deb.debian.org/debian bookworm/main i386 python3-idna all 3.3-1 [39.4 kB] Get: 115 http://deb.debian.org/debian bookworm/main i386 python3-imagesize all 1.4.1-1 [6688 B] Get: 116 http://deb.debian.org/debian bookworm/main i386 python3-markupsafe i386 2.1.2-1+b1 [13.3 kB] Get: 117 http://deb.debian.org/debian bookworm/main i386 python3-jinja2 all 3.1.2-1 [119 kB] Get: 118 http://deb.debian.org/debian bookworm/main i386 python3-mappy i386 2.24+dfsg-3+b1 [177 kB] Get: 119 http://deb.debian.org/debian bookworm/main i386 python3-six all 1.16.0-4 [17.5 kB] Get: 120 http://deb.debian.org/debian bookworm/main i386 python3-nose2 all 0.12.0-1 [107 kB] Get: 121 http://deb.debian.org/debian bookworm/main i386 python3-packaging all 23.0-1 [32.5 kB] Get: 122 http://deb.debian.org/debian bookworm/main i386 python3-ply all 3.11-5 [65.8 kB] Get: 123 http://deb.debian.org/debian bookworm/main i386 python3-pygments all 2.14.0+dfsg-1 [783 kB] Get: 124 http://deb.debian.org/debian bookworm/main i386 python3-pythran i386 0.11.0+ds-7 [427 kB] Get: 125 http://deb.debian.org/debian bookworm/main i386 python3-urllib3 all 1.26.12-1 [117 kB] Get: 126 http://deb.debian.org/debian bookworm/main i386 python3-requests all 2.28.1+dfsg-1 [67.9 kB] Get: 127 http://deb.debian.org/debian bookworm/main i386 python3-scipy i386 1.10.1-2 [15.2 MB] Get: 128 http://deb.debian.org/debian bookworm/main i386 python3-setuptools all 66.1.1-1 [521 kB] Get: 129 http://deb.debian.org/debian bookworm/main i386 python3-snowballstemmer all 2.2.0-2 [57.8 kB] Get: 130 http://deb.debian.org/debian bookworm/main i386 sphinx-common all 5.3.0-4 [653 kB] Get: 131 http://deb.debian.org/debian bookworm/main i386 python3-sphinx all 5.3.0-4 [549 kB] Get: 132 http://deb.debian.org/debian bookworm/main i386 sphinx-rtd-theme-common all 1.2.0+dfsg-1 [997 kB] Get: 133 http://deb.debian.org/debian bookworm/main i386 python3-sphinx-argparse all 0.3.2-1 [37.1 kB] Get: 134 http://deb.debian.org/debian bookworm/main i386 python3-sphinx-rtd-theme all 1.2.0+dfsg-1 [27.7 kB] Get: 135 http://deb.debian.org/debian bookworm/main i386 python3-tqdm all 4.64.1-1 [97.7 kB] Get: 136 http://deb.debian.org/debian bookworm/main i386 sphinx-doc all 5.3.0-4 [2307 kB] Fetched 122 MB in 2s (57.2 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package fonts-lato. (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 ... 19604 files and directories currently installed.) Preparing to unpack .../fonts-lato_2.0-2.1_all.deb ... Unpacking fonts-lato (2.0-2.1) ... Selecting previously unselected package libpython3.11-minimal:i386. Preparing to unpack .../libpython3.11-minimal_3.11.2-6_i386.deb ... Unpacking libpython3.11-minimal:i386 (3.11.2-6) ... Selecting previously unselected package libexpat1:i386. Preparing to unpack .../libexpat1_2.5.0-1_i386.deb ... Unpacking libexpat1:i386 (2.5.0-1) ... Selecting previously unselected package python3.11-minimal. Preparing to unpack .../python3.11-minimal_3.11.2-6_i386.deb ... Unpacking python3.11-minimal (3.11.2-6) ... Setting up libpython3.11-minimal:i386 (3.11.2-6) ... Setting up libexpat1:i386 (2.5.0-1) ... Setting up python3.11-minimal (3.11.2-6) ... 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 ... 19946 files and directories currently installed.) Preparing to unpack .../0-python3-minimal_3.11.2-1+b1_i386.deb ... Unpacking python3-minimal (3.11.2-1+b1) ... Selecting previously unselected package media-types. Preparing to unpack .../1-media-types_10.0.0_all.deb ... Unpacking media-types (10.0.0) ... Selecting previously unselected package readline-common. Preparing to unpack .../2-readline-common_8.2-1.3_all.deb ... Unpacking readline-common (8.2-1.3) ... Selecting previously unselected package libreadline8:i386. Preparing to unpack .../3-libreadline8_8.2-1.3_i386.deb ... Unpacking libreadline8:i386 (8.2-1.3) ... Selecting previously unselected package libpython3.11-stdlib:i386. Preparing to unpack .../4-libpython3.11-stdlib_3.11.2-6_i386.deb ... Unpacking libpython3.11-stdlib:i386 (3.11.2-6) ... Selecting previously unselected package python3.11. Preparing to unpack .../5-python3.11_3.11.2-6_i386.deb ... Unpacking python3.11 (3.11.2-6) ... Selecting previously unselected package libpython3-stdlib:i386. Preparing to unpack .../6-libpython3-stdlib_3.11.2-1+b1_i386.deb ... Unpacking libpython3-stdlib:i386 (3.11.2-1+b1) ... Setting up python3-minimal (3.11.2-1+b1) ... 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 ... 20380 files and directories currently installed.) Preparing to unpack .../000-python3_3.11.2-1+b1_i386.deb ... Unpacking python3 (3.11.2-1+b1) ... Selecting previously unselected package sgml-base. Preparing to unpack .../001-sgml-base_1.31_all.deb ... Unpacking sgml-base (1.31) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../002-sensible-utils_0.0.17+nmu1_all.deb ... Unpacking sensible-utils (0.0.17+nmu1) ... Selecting previously unselected package openssl. Preparing to unpack .../003-openssl_3.0.8-1_i386.deb ... Unpacking openssl (3.0.8-1) ... Selecting previously unselected package ca-certificates. Preparing to unpack .../004-ca-certificates_20230311_all.deb ... Unpacking ca-certificates (20230311) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../005-libmagic-mgc_1%3a5.44-3_i386.deb ... Unpacking libmagic-mgc (1:5.44-3) ... Selecting previously unselected package libmagic1:i386. Preparing to unpack .../006-libmagic1_1%3a5.44-3_i386.deb ... Unpacking libmagic1:i386 (1:5.44-3) ... Selecting previously unselected package file. Preparing to unpack .../007-file_1%3a5.44-3_i386.deb ... Unpacking file (1:5.44-3) ... Selecting previously unselected package gettext-base. Preparing to unpack .../008-gettext-base_0.21-12_i386.deb ... Unpacking gettext-base (0.21-12) ... Selecting previously unselected package libuchardet0:i386. Preparing to unpack .../009-libuchardet0_0.0.7-1_i386.deb ... Unpacking libuchardet0:i386 (0.0.7-1) ... Selecting previously unselected package groff-base. Preparing to unpack .../010-groff-base_1.22.4-10_i386.deb ... Unpacking groff-base (1.22.4-10) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../011-bsdextrautils_2.38.1-5+b1_i386.deb ... Unpacking bsdextrautils (2.38.1-5+b1) ... Selecting previously unselected package libpipeline1:i386. Preparing to unpack .../012-libpipeline1_1.5.7-1_i386.deb ... Unpacking libpipeline1:i386 (1.5.7-1) ... Selecting previously unselected package man-db. Preparing to unpack .../013-man-db_2.11.2-2_i386.deb ... Unpacking man-db (2.11.2-2) ... Selecting previously unselected package m4. Preparing to unpack .../014-m4_1.4.19-3_i386.deb ... Unpacking m4 (1.4.19-3) ... Selecting previously unselected package autoconf. Preparing to unpack .../015-autoconf_2.71-3_all.deb ... Unpacking autoconf (2.71-3) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../016-autotools-dev_20220109.1_all.deb ... Unpacking autotools-dev (20220109.1) ... Selecting previously unselected package automake. Preparing to unpack .../017-automake_1%3a1.16.5-1.3_all.deb ... Unpacking automake (1:1.16.5-1.3) ... Selecting previously unselected package autopoint. Preparing to unpack .../018-autopoint_0.21-12_all.deb ... Unpacking autopoint (0.21-12) ... Selecting previously unselected package cython3. Preparing to unpack .../019-cython3_0.29.32-2+b1_i386.deb ... Unpacking cython3 (0.29.32-2+b1) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../020-libdebhelper-perl_13.11.4_all.deb ... Unpacking libdebhelper-perl (13.11.4) ... Selecting previously unselected package libtool. Preparing to unpack .../021-libtool_2.4.7-5_all.deb ... Unpacking libtool (2.4.7-5) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../022-dh-autoreconf_20_all.deb ... Unpacking dh-autoreconf (20) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../023-libarchive-zip-perl_1.68-1_all.deb ... Unpacking libarchive-zip-perl (1.68-1) ... Selecting previously unselected package libsub-override-perl. Preparing to unpack .../024-libsub-override-perl_0.09-4_all.deb ... Unpacking libsub-override-perl (0.09-4) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../025-libfile-stripnondeterminism-perl_1.13.1-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.13.1-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../026-dh-strip-nondeterminism_1.13.1-1_all.deb ... Unpacking dh-strip-nondeterminism (1.13.1-1) ... Selecting previously unselected package libelf1:i386. Preparing to unpack .../027-libelf1_0.188-2.1_i386.deb ... Unpacking libelf1:i386 (0.188-2.1) ... 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Setting up docutils-doc (0.19+dfsg-6) ... Setting up bsdextrautils (2.38.1-5+b1) ... Setting up libjs-mathjax (2.7.9+dfsg-1) ... Setting up libmagic-mgc (1:5.44-3) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libdebhelper-perl (13.11.4) ... Setting up libbrotli1:i386 (1.0.9-2+b6) ... Setting up libnghttp2-14:i386 (1.52.0-1) ... Setting up libmagic1:i386 (1:5.44-3) ... Setting up gettext-base (0.21-12) ... Setting up m4 (1.4.19-3) ... Setting up file (1:5.44-3) ... Setting up libaec0:i386 (1.0.6-1+b1) ... Setting up python-babel-localedata (2.10.3-1) ... Setting up libsasl2-modules-db:i386 (2.1.28+dfsg-10) ... Setting up libxsimd-dev:i386 (8.1.0-7) ... Setting up autotools-dev (20220109.1) ... Setting up libblas3:i386 (3.11.0-2) ... update-alternatives: using /usr/lib/i386-linux-gnu/blas/libblas.so.3 to provide /usr/lib/i386-linux-gnu/libblas.so.3 (libblas.so.3-i386-linux-gnu) in auto mode Setting up libexpat1-dev:i386 (2.5.0-1) ... Setting up librtmp1:i386 (2.4+20151223.gitfa8646d.1-2+b2) ... Setting up liblzf1:i386 (3.6-3) ... Setting up autopoint (0.21-12) ... Setting up libsasl2-2:i386 (2.1.28+dfsg-10) ... Setting up libgfortran5:i386 (12.2.0-14) ... Setting up autoconf (2.71-3) ... Setting up zlib1g-dev:i386 (1:1.2.13.dfsg-1) ... Setting up sensible-utils (0.0.17+nmu1) ... Setting up libuchardet0:i386 (0.0.7-1) ... Setting up libjson-perl (4.10000-1) ... Setting up libsub-override-perl (0.09-4) ... Setting up libssh2-1:i386 (1.10.0-3+b1) ... Setting up sgml-base (1.31) ... Setting up libboost-dev:i386 (1.74.0.3) ... Setting up libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... Setting up openssl (3.0.8-1) ... Setting up libelf1:i386 (0.188-2.1) ... Setting up readline-common (8.2-1.3) ... Setting up libxml2:i386 (2.9.14+dfsg-1.2) ... Setting up fonts-font-awesome (5.0.10+really4.7.0~dfsg-4.1) ... Setting up sphinx-rtd-theme-common (1.2.0+dfsg-1) ... Setting up libsz2:i386 (1.0.6-1+b1) ... 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 (1.13.1-1) ... Setting up liblapack3:i386 (3.11.0-2) ... update-alternatives: using /usr/lib/i386-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/i386-linux-gnu/liblapack.so.3 (liblapack.so.3-i386-linux-gnu) in auto mode Setting up gettext (0.21-12) ... Setting up libopenblas0-pthread:i386 (0.3.21+ds-4) ... update-alternatives: using /usr/lib/i386-linux-gnu/openblas-pthread/libblas.so.3 to provide /usr/lib/i386-linux-gnu/libblas.so.3 (libblas.so.3-i386-linux-gnu) in auto mode update-alternatives: using /usr/lib/i386-linux-gnu/openblas-pthread/liblapack.so.3 to provide /usr/lib/i386-linux-gnu/liblapack.so.3 (liblapack.so.3-i386-linux-gnu) in auto mode update-alternatives: using /usr/lib/i386-linux-gnu/openblas-pthread/libopenblas.so.0 to provide /usr/lib/i386-linux-gnu/libopenblas.so.0 (libopenblas.so.0-i386-linux-gnu) in auto mode Setting up libtool (2.4.7-5) ... Setting up libreadline8:i386 (8.2-1.3) ... Setting up libldap-2.5-0:i386 (2.5.13+dfsg-5) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up ca-certificates (20230311) ... Updating certificates in /etc/ssl/certs... 140 added, 0 removed; done. Setting up python3.11-doc (3.11.2-6) ... Setting up libjs-sphinxdoc (5.3.0-4) ... Setting up python-requests-doc (2.28.1+dfsg-1) ... Setting up dh-strip-nondeterminism (1.13.1-1) ... Setting up dwz (0.15-1) ... Setting up libopenblas0:i386 (0.3.21+ds-4) ... Setting up groff-base (1.22.4-10) ... Setting up xml-core (0.18+nmu1) ... Setting up libcurl4:i386 (7.88.1-8) ... Setting up python3-doc (3.11.2-1) ... Setting up liblbfgsb0:i386 (3.0+dfsg.4-1) ... Setting up libopenblas-pthread-dev:i386 (0.3.21+ds-4) ... update-alternatives: using /usr/lib/i386-linux-gnu/openblas-pthread/libblas.so to provide /usr/lib/i386-linux-gnu/libblas.so (libblas.so-i386-linux-gnu) in auto mode update-alternatives: using /usr/lib/i386-linux-gnu/openblas-pthread/liblapack.so to provide /usr/lib/i386-linux-gnu/liblapack.so (liblapack.so-i386-linux-gnu) in auto mode update-alternatives: using /usr/lib/i386-linux-gnu/openblas-pthread/libopenblas.so to provide /usr/lib/i386-linux-gnu/libopenblas.so (libopenblas.so-i386-linux-gnu) in auto mode Setting up sphinx-doc (5.3.0-4) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libpython3.11-stdlib:i386 (3.11.2-6) ... Setting up man-db (2.11.2-2) ... Not building database; man-db/auto-update is not 'true'. Setting up libopenblas-dev:i386 (0.3.21+ds-4) ... Setting up sphinx-common (5.3.0-4) ... Setting up libhdf5-103-1:i386 (1.10.8+repack1-1) ... Setting up libpython3-stdlib:i386 (3.11.2-1+b1) ... Setting up libhdf5-hl-100:i386 (1.10.8+repack1-1) ... Setting up python3.11 (3.11.2-6) ... Setting up libpython3.11:i386 (3.11.2-6) ... Setting up debhelper (13.11.4) ... Setting up python3 (3.11.2-1+b1) ... Setting up python3-markupsafe (2.1.2-1+b1) ... Setting up python3-tz (2022.7.1-3) ... Setting up python3-six (1.16.0-4) ... Setting up python3-roman (3.3-3) ... Setting up python3-decorator (5.1.1-3) ... Setting up python3-jinja2 (3.1.2-1) ... Setting up python3-packaging (23.0-1) ... Setting up python3-certifi (2022.9.24-1) ... Setting up python3-snowballstemmer (2.2.0-2) ... Setting up libpython3.11-dev:i386 (3.11.2-6) ... Setting up python3-idna (3.3-1) ... Setting up cython3 (0.29.32-2+b1) ... Setting up python3-urllib3 (1.26.12-1) ... Setting up python3-lib2to3 (3.11.2-2) ... Setting up python3-imagesize (1.4.1-1) ... Setting up python3-pkg-resources (66.1.1-1) ... Setting up python3-distutils (3.11.2-2) ... Setting up dh-python (5.20230130) ... Setting up libpython3-dev:i386 (3.11.2-1+b1) ... Setting up python3-setuptools (66.1.1-1) ... Setting up python3-babel (2.10.3-1) ... update-alternatives: using /usr/bin/pybabel-python3 to provide /usr/bin/pybabel (pybabel) in auto mode Setting up python3.11-dev (3.11.2-6) ... Setting up python3-charset-normalizer (3.0.1-2) ... Setting up python3-alabaster (0.7.12-1) ... Setting up python3-ply (3.11-5) ... Setting up python3-tqdm (4.64.1-1) ... Setting up python3-gast (0.5.2-2) ... Setting up python3-all (3.11.2-1+b1) ... Setting up python3-mappy (2.24+dfsg-3+b1) ... Setting up python3-nose2 (0.12.0-1) ... Setting up python3-beniget (0.4.1-3) ... Setting up python3-pygments (2.14.0+dfsg-1) ... Setting up python3-chardet (5.1.0+dfsg-2) ... Setting up libpython3-all-dev:i386 (3.11.2-1+b1) ... Setting up python3-dev (3.11.2-1+b1) ... Setting up python3-requests (2.28.1+dfsg-1) ... Setting up python3-numpy (1:1.24.2-1) ... Setting up python3-all-dev (3.11.2-1+b1) ... Setting up python3-h5py-serial (3.7.0-8) ... Setting up python3-h5py (3.7.0-8) ... Setting up python3-pythran (0.11.0+ds-7) ... Setting up python3-scipy (1.10.1-2) ... Processing triggers for libc-bin (2.36-9) ... Processing triggers for sgml-base (1.31) ... Setting up docutils-common (0.19+dfsg-6) ... Processing triggers for sgml-base (1.31) ... Setting up python3-docutils (0.19+dfsg-6) ... Setting up python3-sphinx (5.3.0-4) ... Setting up python3-sphinx-rtd-theme (1.2.0+dfsg-1) ... Setting up python3-sphinx-argparse (0.3.2-1) ... Processing triggers for ca-certificates (20230311) ... 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/tombo-1.5.1/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../tombo_1.5.1-4_source.changes dpkg-buildpackage: info: source package tombo dpkg-buildpackage: info: source version 1.5.1-4 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-source --before-build . dpkg-buildpackage: info: host architecture i386 debian/rules clean dh clean --with python3,sphinxdoc --buildsystem=pybuild dh_auto_clean -O--buildsystem=pybuild I: pybuild base:240: python3.11 setup.py clean running clean removing '/build/tombo-1.5.1/.pybuild/cpython3_3.11/build' (and everything under it) 'build/bdist.linux-i386' does not exist -- can't clean it 'build/scripts-3.11' does not exist -- can't clean it dh_autoreconf_clean -O--buildsystem=pybuild dh_clean -O--buildsystem=pybuild debian/rules binary dh binary --with python3,sphinxdoc --buildsystem=pybuild dh_update_autotools_config -O--buildsystem=pybuild dh_autoreconf -O--buildsystem=pybuild dh_auto_configure -O--buildsystem=pybuild I: pybuild base:240: python3.11 setup.py config running config debian/rules override_dh_auto_build make[1]: Entering directory '/build/tombo-1.5.1' dh_auto_build I: pybuild base:240: /usr/bin/python3 setup.py build running build running build_py creating /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo copying tombo/resquiggle.py -> /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo copying tombo/tombo_stats.py -> /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo copying tombo/_preprocess.py -> /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo copying tombo/_text_output_commands.py -> /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo copying tombo/_default_parameters.py -> /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo copying tombo/_option_parsers.py -> /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo copying tombo/_event_resquiggle.py -> /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo copying tombo/_version.py -> /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo copying tombo/__main__.py -> /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo copying tombo/_filter_reads.py -> /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo copying tombo/tombo_helper.py -> /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo copying tombo/__init__.py -> /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo copying tombo/_plot_commands.py -> /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo running egg_info creating ont_tombo.egg-info writing ont_tombo.egg-info/PKG-INFO writing dependency_links to ont_tombo.egg-info/dependency_links.txt writing entry points to ont_tombo.egg-info/entry_points.txt writing requirements to ont_tombo.egg-info/requires.txt writing top-level names to ont_tombo.egg-info/top_level.txt writing manifest file 'ont_tombo.egg-info/SOURCES.txt' reading manifest file 'ont_tombo.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' warning: no files found matching '*' under directory 'cython' adding license file 'LICENSE.md' writing manifest file 'ont_tombo.egg-info/SOURCES.txt' /usr/lib/python3/dist-packages/setuptools/command/build_py.py:202: SetuptoolsDeprecationWarning: Installing 'tombo.R_scripts' as data is deprecated, please list it in `packages`. !! ############################ # Package would be ignored # ############################ Python recognizes 'tombo.R_scripts' as an importable package, but it is not listed in the `packages` configuration of setuptools. 'tombo.R_scripts' has been automatically added to the distribution only because it may contain data files, but this behavior is likely to change in future versions of setuptools (and therefore is considered deprecated). Please make sure that 'tombo.R_scripts' is included as a package by using the `packages` configuration field or the proper discovery methods (for example by using `find_namespace_packages(...)`/`find_namespace:` instead of `find_packages(...)`/`find:`). You can read more about "package discovery" and "data files" on setuptools documentation page. !! check.warn(importable) /usr/lib/python3/dist-packages/setuptools/command/build_py.py:202: SetuptoolsDeprecationWarning: Installing 'tombo.tombo_models' as data is deprecated, please list it in `packages`. !! ############################ # Package would be ignored # ############################ Python recognizes 'tombo.tombo_models' as an importable package, but it is not listed in the `packages` configuration of setuptools. 'tombo.tombo_models' has been automatically added to the distribution only because it may contain data files, but this behavior is likely to change in future versions of setuptools (and therefore is considered deprecated). Please make sure that 'tombo.tombo_models' is included as a package by using the `packages` configuration field or the proper discovery methods (for example by using `find_namespace_packages(...)`/`find_namespace:` instead of `find_packages(...)`/`find:`). You can read more about "package discovery" and "data files" on setuptools documentation page. !! check.warn(importable) copying tombo/_c_dynamic_programming.pyx -> /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo copying tombo/_c_helper.pyx -> /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo creating /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts copying tombo/R_scripts/debugDP.R -> /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts copying tombo/R_scripts/debugFit.R -> /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts copying tombo/R_scripts/debugRawDP.R -> /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts copying tombo/R_scripts/plotGroupComp.R -> /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts copying tombo/R_scripts/plotKmerDist.R -> /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts copying tombo/R_scripts/plotModelComp.R -> /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts copying tombo/R_scripts/plotMotifStats.R -> /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts copying tombo/R_scripts/plotMultiReadCorr.R -> /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts copying tombo/R_scripts/plotPerReadStats.R -> /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts copying tombo/R_scripts/plotROC.R -> /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts copying tombo/R_scripts/plotROCPerRead.R -> /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts copying tombo/R_scripts/plotReadCorr.R -> /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts copying tombo/R_scripts/plotSigMDS.R -> /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts copying tombo/R_scripts/plotSingleRead.R -> /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts copying tombo/R_scripts/plotSingleRun.R -> /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts creating /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/tombo_models copying tombo/tombo_models/tombo.DNA.5mC.model -> /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/tombo_models copying tombo/tombo_models/tombo.DNA.6mA.model -> /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/tombo_models copying tombo/tombo_models/tombo.DNA.CpG.model -> /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/tombo_models copying tombo/tombo_models/tombo.DNA.dam.model -> /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/tombo_models copying tombo/tombo_models/tombo.DNA.dcm.model -> /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/tombo_models copying tombo/tombo_models/tombo.DNA.model -> /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/tombo_models copying tombo/tombo_models/tombo.RNA.180mV.model -> /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/tombo_models copying tombo/tombo_models/tombo.RNA.200mV.model -> /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/tombo_models copying tombo/tombo_models/tombo.RNA.5mC.model -> /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/tombo_models running build_ext cythoning tombo/_c_dynamic_programming.pyx to tombo/_c_dynamic_programming.cpp INFO: Disabling color, you really want to install colorlog. Disabling color, you really want to install colorlog. /usr/lib/python3/dist-packages/pythran/tables.py:4530: FutureWarning: In the future `np.bool` will be defined as the corresponding NumPy scalar. if not hasattr(numpy, method): /usr/lib/python3/dist-packages/pythran/tables.py:4563: FutureWarning: In the future `np.bytes` will be defined as the corresponding NumPy scalar. obj = getattr(themodule, elem) /usr/lib/python3/dist-packages/Cython/Compiler/Main.py:369: FutureWarning: Cython directive 'language_level' not set, using 2 for now (Py2). This will change in a later release! File: /build/tombo-1.5.1/tombo/_c_dynamic_programming.pyx tree = Parsing.p_module(s, pxd, full_module_name) /usr/lib/python3/dist-packages/Cython/Compiler/Main.py:369: FutureWarning: Cython directive 'language_level' not set, using 2 for now (Py2). This will change in a later release! File: /build/tombo-1.5.1/tombo/_c_helper.pyx tree = Parsing.p_module(s, pxd, full_module_name) sphinx-build -N -bhtml docs docs/build Running Sphinx v5.3.0 Creating file ./tombo.rst. making output directory... done building [mo]: targets for 0 po files that are out of date building [html]: targets for 11 source files that are out of date updating environment: [new config] 11 added, 0 changed, 0 removed reading sources... [ 9%] examples reading sources... [ 18%] filtering reading sources... [ 27%] index reading sources... [ 36%] model_training reading sources... [ 45%] modified_base_detection reading sources... [ 54%] plotting reading sources... [ 63%] resquiggle reading sources... [ 72%] rna reading sources... [ 81%] text_output reading sources... [ 90%] tombo reading sources... [100%] tutorials WARNING: autodoc: failed to import module 'tombo'; the following exception was raised: No module named 'tombo' WARNING: autodoc: failed to import module 'resquiggle' from module 'tombo'; the following exception was raised: No module named 'tombo' WARNING: autodoc: failed to import module 'tombo_helper' from module 'tombo'; the following exception was raised: No module named 'tombo' WARNING: autodoc: failed to import module 'tombo_stats' from module 'tombo'; the following exception was raised: No module named 'tombo' looking for now-outdated files... none found pickling environment... done checking consistency... done preparing documents... done writing output... [ 9%] examples writing output... [ 18%] filtering writing output... [ 27%] index writing output... [ 36%] model_training writing output... [ 45%] modified_base_detection writing output... [ 54%] plotting writing output... [ 63%] resquiggle writing output... [ 72%] rna writing output... [ 81%] text_output writing output... [ 90%] tombo writing output... [100%] tutorials generating indices... genindex done writing additional pages... search done copying images... [ 4%] _images/testing_method_comparison.png copying images... [ 8%] _images/alt_density_est.png copying images... [ 13%] _images/old_correction_plot.png copying images... [ 17%] _images/outlier_robust_llr.gif copying images... [ 21%] _images/dampened_fraction.png copying images... [ 26%] _images/single_samp.png copying images... [ 30%] _images/sample_comp.png copying images... [ 34%] _images/model_comp.png copying images... [ 39%] _images/alt_model_comp.png copying images... [ 43%] _images/boxplot.png copying images... [ 47%] _images/quantile.png copying images... [ 52%] _images/density.png copying images... [ 56%] _images/pre_read_5mC.png copying images... [ 60%] _images/per_read_do_novo.png copying images... [ 65%] _images/stat_dist.png copying images... [ 69%] _images/kmer_levels.png copying images... [ 73%] _images/roc.png copying images... [ 78%] _images/per_read_stat_dist.png copying images... [ 82%] _images/begin_half_z_scores.png copying images... [ 86%] _images/begin_forward_pass.png copying images... [ 91%] _images/adaptive_half_z_scores.png copying images... [ 95%] _images/adaptive_forward_pass.png copying images... [100%] _images/stat_dist_null.png copying static files... done copying extra files... done dumping search index in English (code: en)... done dumping object inventory... done build succeeded, 4 warnings. The HTML pages are in docs/build. make[1]: Leaving directory '/build/tombo-1.5.1' dh_auto_test -O--buildsystem=pybuild I: pybuild base:240: cd /build/tombo-1.5.1/.pybuild/cpython3_3.11/build; python3.11 -m nose2 -v ---------------------------------------------------------------------- Ran 0 tests in 0.000s OK create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=pybuild dh_prep -O--buildsystem=pybuild dh_auto_install -O--buildsystem=pybuild I: pybuild base:240: /usr/bin/python3 setup.py install --root /build/tombo-1.5.1/debian/tmp running install /usr/lib/python3/dist-packages/setuptools/command/install.py:34: SetuptoolsDeprecationWarning: setup.py install is deprecated. Use build and pip and other standards-based tools. warnings.warn( running build running build_py running egg_info writing ont_tombo.egg-info/PKG-INFO writing dependency_links to ont_tombo.egg-info/dependency_links.txt writing entry points to ont_tombo.egg-info/entry_points.txt writing requirements to ont_tombo.egg-info/requires.txt writing top-level names to ont_tombo.egg-info/top_level.txt reading manifest file 'ont_tombo.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' warning: no files found matching '*' under directory 'cython' adding license file 'LICENSE.md' writing manifest file 'ont_tombo.egg-info/SOURCES.txt' /usr/lib/python3/dist-packages/setuptools/command/build_py.py:202: SetuptoolsDeprecationWarning: Installing 'tombo.R_scripts' as data is deprecated, please list it in `packages`. !! ############################ # Package would be ignored # ############################ Python recognizes 'tombo.R_scripts' as an importable package, but it is not listed in the `packages` configuration of setuptools. 'tombo.R_scripts' has been automatically added to the distribution only because it may contain data files, but this behavior is likely to change in future versions of setuptools (and therefore is considered deprecated). Please make sure that 'tombo.R_scripts' is included as a package by using the `packages` configuration field or the proper discovery methods (for example by using `find_namespace_packages(...)`/`find_namespace:` instead of `find_packages(...)`/`find:`). You can read more about "package discovery" and "data files" on setuptools documentation page. !! check.warn(importable) /usr/lib/python3/dist-packages/setuptools/command/build_py.py:202: SetuptoolsDeprecationWarning: Installing 'tombo.tombo_models' as data is deprecated, please list it in `packages`. !! ############################ # Package would be ignored # ############################ Python recognizes 'tombo.tombo_models' as an importable package, but it is not listed in the `packages` configuration of setuptools. 'tombo.tombo_models' has been automatically added to the distribution only because it may contain data files, but this behavior is likely to change in future versions of setuptools (and therefore is considered deprecated). Please make sure that 'tombo.tombo_models' is included as a package by using the `packages` configuration field or the proper discovery methods (for example by using `find_namespace_packages(...)`/`find_namespace:` instead of `find_packages(...)`/`find:`). You can read more about "package discovery" and "data files" on setuptools documentation page. !! check.warn(importable) running build_ext skipping 'tombo/_c_dynamic_programming.cpp' Cython extension (up-to-date) skipping 'tombo/_c_helper.cpp' Cython extension (up-to-date) running install_lib creating /build/tombo-1.5.1/debian/tmp/usr creating /build/tombo-1.5.1/debian/tmp/usr/lib creating /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11 creating /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages creating /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo creating /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/tombo_models copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/tombo_models/tombo.DNA.dam.model -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/tombo_models copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/tombo_models/tombo.RNA.180mV.model -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/tombo_models copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/tombo_models/tombo.RNA.5mC.model -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/tombo_models copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/tombo_models/tombo.DNA.dcm.model -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/tombo_models copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/tombo_models/tombo.DNA.5mC.model -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/tombo_models copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/tombo_models/tombo.DNA.6mA.model -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/tombo_models copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/tombo_models/tombo.DNA.CpG.model -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/tombo_models copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/tombo_models/tombo.RNA.200mV.model -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/tombo_models copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/tombo_models/tombo.DNA.model -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/tombo_models copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/_c_dynamic_programming.pyx -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/resquiggle.py -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/tombo_stats.py -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/_preprocess.py -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/_text_output_commands.py -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/_default_parameters.py -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/_option_parsers.py -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/_event_resquiggle.py -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/_c_helper.cpython-311-i386-linux-gnu.so -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/_version.py -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/_c_dynamic_programming.cpython-311-i386-linux-gnu.so -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/__main__.py -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/_filter_reads.py -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/_c_helper.pyx -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo creating /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/R_scripts copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts/plotGroupComp.R -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/R_scripts copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts/plotKmerDist.R -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/R_scripts copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts/plotReadCorr.R -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/R_scripts copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts/plotMultiReadCorr.R -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/R_scripts copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts/plotSigMDS.R -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/R_scripts copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts/plotROC.R -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/R_scripts copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts/debugFit.R -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/R_scripts copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts/debugRawDP.R -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/R_scripts copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts/debugDP.R -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/R_scripts copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts/plotROCPerRead.R -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/R_scripts copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts/plotModelComp.R -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/R_scripts copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts/plotSingleRead.R -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/R_scripts copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts/plotSingleRun.R -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/R_scripts copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts/plotPerReadStats.R -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/R_scripts copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts/plotMotifStats.R -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/R_scripts copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/tombo_helper.py -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/__init__.py -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/_plot_commands.py -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo byte-compiling /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/resquiggle.py to resquiggle.cpython-311.pyc byte-compiling /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/tombo_stats.py to tombo_stats.cpython-311.pyc byte-compiling /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/_preprocess.py to _preprocess.cpython-311.pyc byte-compiling /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/_text_output_commands.py to _text_output_commands.cpython-311.pyc byte-compiling /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/_default_parameters.py to _default_parameters.cpython-311.pyc byte-compiling /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/_option_parsers.py to _option_parsers.cpython-311.pyc byte-compiling /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/_event_resquiggle.py to _event_resquiggle.cpython-311.pyc byte-compiling /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/_version.py to _version.cpython-311.pyc byte-compiling /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/__main__.py to __main__.cpython-311.pyc byte-compiling /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/_filter_reads.py to _filter_reads.cpython-311.pyc byte-compiling /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/tombo_helper.py to tombo_helper.cpython-311.pyc byte-compiling /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/__init__.py to __init__.cpython-311.pyc byte-compiling /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/_plot_commands.py to _plot_commands.cpython-311.pyc running install_egg_info Copying ont_tombo.egg-info to /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/ont_tombo-1.5.1.egg-info Skipping SOURCES.txt running install_scripts Installing tombo script to /build/tombo-1.5.1/debian/tmp/usr/bin dh_install -O--buildsystem=pybuild dh_installdocs -O--buildsystem=pybuild dh_sphinxdoc -O--buildsystem=pybuild dh_installchangelogs -O--buildsystem=pybuild dh_installman -O--buildsystem=pybuild dh_python3 -O--buildsystem=pybuild I: dh_python3 tools:114: replacing shebang in debian/tombo/usr/share/tombo/scripts/dump_per_read_statistics.py 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 debian/rules override_dh_fixperms make[1]: Entering directory '/build/tombo-1.5.1' dh_fixperms find debian -name "*.model" -exec chmod -x \{\} \; make[1]: Leaving directory '/build/tombo-1.5.1' dh_missing -O--buildsystem=pybuild dh_dwz -a -O--buildsystem=pybuild dh_strip -a -O--buildsystem=pybuild dh_makeshlibs -a -O--buildsystem=pybuild dh_shlibdeps -a -O--buildsystem=pybuild dh_installdeb -O--buildsystem=pybuild dh_gencontrol -O--buildsystem=pybuild dpkg-gencontrol: warning: package tombo-doc: substitution variable ${sphinxdoc:Built-Using} unused, but is defined dh_md5sums -O--buildsystem=pybuild dh_builddeb -O--buildsystem=pybuild dpkg-deb: building package 'tombo' in '../tombo_1.5.1-4_i386.deb'. dpkg-deb: building package 'tombo-dbgsym' in '../tombo-dbgsym_1.5.1-4_i386.deb'. dpkg-deb: building package 'tombo-doc' in '../tombo-doc_1.5.1-4_all.deb'. dpkg-genbuildinfo --build=binary -O../tombo_1.5.1-4_i386.buildinfo dpkg-genchanges --build=binary -O../tombo_1.5.1-4_i386.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env I: removing directory /srv/workspace/pbuilder/19366 and its subdirectories I: Current time: Mon Apr 24 03:33:24 -12 2023 I: pbuilder-time-stamp: 1682350404 Mon Apr 24 15:37:25 UTC 2023 I: 1st build successful. Starting 2nd build on remote node ionos16-i386.debian.net. Mon Apr 24 15:37:25 UTC 2023 I: Preparing to do remote build '2' on ionos16-i386.debian.net. Mon Apr 24 15:38:57 UTC 2023 I: Deleting $TMPDIR on ionos16-i386.debian.net. Mon Apr 24 15:38:57 UTC 2023 I: tombo_1.5.1-4_i386.changes: Format: 1.8 Date: Tue, 29 Nov 2022 20:49:19 +0100 Source: tombo Binary: tombo tombo-dbgsym tombo-doc Architecture: i386 all Version: 1.5.1-4 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Andreas Tille Description: tombo - identification of modified nucleotides from raw nanopore sequenci tombo-doc - identification of modified nucleotides from raw nanopore sequenci Changes: tombo (1.5.1-4) unstable; urgency=medium . * Fix watch file * Standards-Version: 4.6.1 (routine-update) Checksums-Sha1: 3fe57dfd8f0e550a6d07e7175b71480ccad7478c 391896 tombo-dbgsym_1.5.1-4_i386.deb 71774d7fcd103613b8960d28b958cfb5d25e0e3c 21732224 tombo-doc_1.5.1-4_all.deb 7ce4eda1b0995f6d5d80f2530063880ce28884ab 8920 tombo_1.5.1-4_i386.buildinfo cf4a096161dcbe44d127f89380709416e22359f0 433492 tombo_1.5.1-4_i386.deb Checksums-Sha256: 17c1a40541835cb465bd6af44bd8f0bc5d396250c49f0707fb946efb1dd2f779 391896 tombo-dbgsym_1.5.1-4_i386.deb e368449d1ab51942f1c099b0a6b8d5c7c51c031ee6214226f4ae188f1f61043a 21732224 tombo-doc_1.5.1-4_all.deb e53c609dfc6b032f43a9323bc67c10e13b83601fdec5057a87c6e4f5043c1140 8920 tombo_1.5.1-4_i386.buildinfo 9994b2a408a4511350448b0c566cbdee764eac43be68a86ec49588ce86f58605 433492 tombo_1.5.1-4_i386.deb Files: 0cb560c20355df4a648aafaae7e9dc21 391896 debug optional tombo-dbgsym_1.5.1-4_i386.deb 0388628dccc0dd1ee91090056b760dce 21732224 doc optional tombo-doc_1.5.1-4_all.deb bf159fb1e5aa6d5ce26c31e6023a3804 8920 science optional tombo_1.5.1-4_i386.buildinfo c6487074ef76072cf278ce92efca7b10 433492 science optional tombo_1.5.1-4_i386.deb Mon Apr 24 15:38:58 UTC 2023 I: diffoscope 241 will be used to compare the two builds: # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.wczM5j6T/tombo_1.5.1-4.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.wczM5j6T/tombo_1.5.1-4.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.wczM5j6T/tombo_1.5.1-4.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.wczM5j6T/b1/tombo_1.5.1-4_i386.changes /srv/reproducible-results/rbuild-debian/r-b-build.wczM5j6T/b2/tombo_1.5.1-4_i386.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: 0.525s) 0.525s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.243s) 0.243s 12 calls diffoscope.comparators.binary.FilesystemFile 0.000s 10 calls abc.DotChangesFile ## specialize (total time: 0.000s) 0.000s 1 call specialize Mon Apr 24 15:38:59 UTC 2023 I: diffoscope 241 found no differences in the changes files, and a .buildinfo file also exists. Mon Apr 24 15:38:59 UTC 2023 I: tombo from bookworm built successfully and reproducibly on i386. Mon Apr 24 15:39:00 UTC 2023 I: Submitting .buildinfo files to external archives: Mon Apr 24 15:39:00 UTC 2023 I: Submitting 12K b1/tombo_1.5.1-4_i386.buildinfo.asc Mon Apr 24 15:39:01 UTC 2023 I: Submitting 12K b2/tombo_1.5.1-4_i386.buildinfo.asc Mon Apr 24 15:39:02 UTC 2023 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Mon Apr 24 15:39:02 UTC 2023 I: Done submitting .buildinfo files. Mon Apr 24 15:39:02 UTC 2023 I: Removing signed tombo_1.5.1-4_i386.buildinfo.asc files: removed './b1/tombo_1.5.1-4_i386.buildinfo.asc' removed './b2/tombo_1.5.1-4_i386.buildinfo.asc'