I: pbuilder: network access will be disabled during build
I: Current time: Tue Mar 18 22:06:10 +14 2025
I: pbuilder-time-stamp: 1742285170
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_0.4.28-3.dsc]
I: copying [./mirtop_0.4.28.orig.tar.gz]
I: copying [./mirtop_0.4.28-3.debian.tar.xz]
I: Extracting source
dpkg-source: warning: cannot verify inline signature for ./mirtop_0.4.28-3.dsc: unsupported subcommand
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_0.4.28-3.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
dpkg-source: info: applying python3.12-syntax.patch
dpkg-source: info: applying remove_undeclared_pkg_resources.patch
I: Not using root during the build.
I: Installing the build-deps
I: user script /srv/workspace/pbuilder/30084/tmp/hooks/D01_modify_environment starting
debug: Running on wbq0.
I: Changing host+domainname to test build reproducibility
I: Adding a custom variable just for the fun of it...
I: Changing /bin/sh to bash
'/bin/sh' -> '/bin/bash'
lrwxrwxrwx 1 root root 9 Mar 18 08:06 /bin/sh -> /bin/bash
I: Setting pbuilder2's login shell to /bin/bash
I: Setting pbuilder2's GECOS to second user,second room,second work-phone,second home-phone,second other
I: user script /srv/workspace/pbuilder/30084/tmp/hooks/D01_modify_environment finished
I: user script /srv/workspace/pbuilder/30084/tmp/hooks/D02_print_environment starting
I: set
  BASH=/bin/sh
  BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:globskipdots:hostcomplete:interactive_comments:patsub_replacement:progcomp:promptvars:sourcepath
  BASH_ALIASES=()
  BASH_ARGC=()
  BASH_ARGV=()
  BASH_CMDS=()
  BASH_LINENO=([0]="12" [1]="0")
  BASH_LOADABLES_PATH=/usr/local/lib/bash:/usr/lib/bash:/opt/local/lib/bash:/usr/pkg/lib/bash:/opt/pkg/lib/bash:.
  BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment")
  BASH_VERSINFO=([0]="5" [1]="2" [2]="37" [3]="1" [4]="release" [5]="arm-unknown-linux-gnueabihf")
  BASH_VERSION='5.2.37(1)-release'
  BUILDDIR=/build/reproducible-path
  BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other'
  BUILDUSERNAME=pbuilder2
  BUILD_ARCH=armhf
  DEBIAN_FRONTEND=noninteractive
  DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=4 '
  DIRSTACK=()
  DISTRIBUTION=unstable
  EUID=0
  FUNCNAME=([0]="Echo" [1]="main")
  GROUPS=()
  HOME=/root
  HOSTNAME=i-capture-the-hostname
  HOSTTYPE=arm
  HOST_ARCH=armhf
  IFS=' 	
  '
  INVOCATION_ID=2199c5fabb6a40339b9d9783dfafb938
  LANG=C
  LANGUAGE=it_CH:it
  LC_ALL=C
  MACHTYPE=arm-unknown-linux-gnueabihf
  MAIL=/var/mail/root
  OPTERR=1
  OPTIND=1
  OSTYPE=linux-gnueabihf
  PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path
  PBCURRENTCOMMANDLINEOPERATION=build
  PBUILDER_OPERATION=build
  PBUILDER_PKGDATADIR=/usr/share/pbuilder
  PBUILDER_PKGLIBDIR=/usr/lib/pbuilder
  PBUILDER_SYSCONFDIR=/etc
  PIPESTATUS=([0]="0")
  POSIXLY_CORRECT=y
  PPID=30084
  PS4='+ '
  PWD=/
  SHELL=/bin/bash
  SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix
  SHLVL=3
  SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.6uEVZkzV/pbuilderrc_n5rY --distribution unstable --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.6uEVZkzV/b2 --logfile b2/build.log mirtop_0.4.28-3.dsc'
  SUDO_GID=113
  SUDO_UID=107
  SUDO_USER=jenkins
  TERM=unknown
  TZ=/usr/share/zoneinfo/Etc/GMT-14
  UID=0
  USER=root
  _='I: set'
  http_proxy=http://10.0.0.15:3142/
I: uname -a
  Linux i-capture-the-hostname 6.1.0-32-armmp #1 SMP Debian 6.1.129-1 (2025-03-06) armv7l GNU/Linux
I: ls -l /bin
  lrwxrwxrwx 1 root root 7 Mar  4 11:20 /bin -> usr/bin
I: user script /srv/workspace/pbuilder/30084/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: armhf
Maintainer: Debian Pbuilder Team <pbuilder-maint@lists.alioth.debian.org>
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 ... 19509 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} libffi8{a} libfile-stripnondeterminism-perl{a} libfontconfig1{a} libfontenc1{a} libfreetype6{a} libfribidi0{a} libgfortran5{a} libglib2.0-0t64{a} libgnutls30t64{a} libgraphite2-3{a} libgssapi-krb5-2{a} libharfbuzz0b{a} libhts3t64{a} libhtscodecs2{a} libicu76{a} libidn2-0{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} libldap2{a} liblerc4{a} libmagic-mgc{a} libmagic1t64{a} libnghttp2-14{a} libnghttp3-9{a} libngtcp2-16{a} libngtcp2-crypto-gnutls8{a} libopenjp2-7{a} libp11-kit0{a} libpipeline1{a} libpixman-1-0{a} libpng16-16t64{a} libpsl5t64{a} libpython3-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} libtasn1-6{a} libtiff6{a} libtool{a} libuchardet0{a} libunistring5{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-numpy-dev{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-pytz{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} python3.13{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-numexpr python3-odf python3-olefile python3-openpyxl python3-scipy python3-tables shared-mime-info wget xdg-user-dirs 
0 packages upgraded, 171 newly installed, 0 to remove and 0 not upgraded.
Need to get 96.0 MB of archives. After unpacking 348 MB will be used.
Writing extended state information...
Get: 1 http://deb.debian.org/debian unstable/main armhf libpython3.13-minimal armhf 3.13.2-2 [846 kB]
Get: 2 http://deb.debian.org/debian unstable/main armhf libexpat1 armhf 2.7.0-1 [85.2 kB]
Get: 3 http://deb.debian.org/debian unstable/main armhf python3.13-minimal armhf 3.13.2-2 [1840 kB]
Get: 4 http://deb.debian.org/debian unstable/main armhf python3-minimal armhf 3.13.2-2 [27.1 kB]
Get: 5 http://deb.debian.org/debian unstable/main armhf media-types all 13.0.0 [29.3 kB]
Get: 6 http://deb.debian.org/debian unstable/main armhf netbase all 6.5 [12.4 kB]
Get: 7 http://deb.debian.org/debian unstable/main armhf tzdata all 2025a-2 [259 kB]
Get: 8 http://deb.debian.org/debian unstable/main armhf libffi8 armhf 3.4.7-1 [20.3 kB]
Get: 9 http://deb.debian.org/debian unstable/main armhf readline-common all 8.2-6 [69.4 kB]
Get: 10 http://deb.debian.org/debian unstable/main armhf libreadline8t64 armhf 8.2-6 [146 kB]
Get: 11 http://deb.debian.org/debian unstable/main armhf libpython3.13-stdlib armhf 3.13.2-2 [1826 kB]
Get: 12 http://deb.debian.org/debian unstable/main armhf python3.13 armhf 3.13.2-2 [746 kB]
Get: 13 http://deb.debian.org/debian unstable/main armhf libpython3-stdlib armhf 3.13.2-2 [10.1 kB]
Get: 14 http://deb.debian.org/debian unstable/main armhf python3 armhf 3.13.2-2 [28.1 kB]
Get: 15 http://deb.debian.org/debian unstable/main armhf python3-numpy-dev armhf 1:2.2.3+ds-5 [133 kB]
Get: 16 http://deb.debian.org/debian unstable/main armhf libblas3 armhf 3.12.1-2 [116 kB]
Get: 17 http://deb.debian.org/debian unstable/main armhf libgfortran5 armhf 14.2.0-19 [263 kB]
Get: 18 http://deb.debian.org/debian unstable/main armhf liblapack3 armhf 3.12.1-2 [1835 kB]
Get: 19 http://deb.debian.org/debian unstable/main armhf python3-numpy armhf 1:2.2.3+ds-5 [3478 kB]
Get: 20 http://deb.debian.org/debian unstable/main armhf sgml-base all 1.31 [15.4 kB]
Get: 21 http://deb.debian.org/debian unstable/main armhf sensible-utils all 0.0.24 [24.8 kB]
Get: 22 http://deb.debian.org/debian unstable/main armhf openssl armhf 3.4.1-1 [1393 kB]
Get: 23 http://deb.debian.org/debian unstable/main armhf ca-certificates all 20241223 [164 kB]
Get: 24 http://deb.debian.org/debian unstable/main armhf libmagic-mgc armhf 1:5.46-2 [337 kB]
Get: 25 http://deb.debian.org/debian unstable/main armhf libmagic1t64 armhf 1:5.46-2 [99.9 kB]
Get: 26 http://deb.debian.org/debian unstable/main armhf file armhf 1:5.46-2 [42.6 kB]
Get: 27 http://deb.debian.org/debian unstable/main armhf gettext-base armhf 0.23.1-1 [238 kB]
Get: 28 http://deb.debian.org/debian unstable/main armhf libuchardet0 armhf 0.0.8-1+b2 [65.6 kB]
Get: 29 http://deb.debian.org/debian unstable/main armhf groff-base armhf 1.23.0-7 [1095 kB]
Get: 30 http://deb.debian.org/debian unstable/main armhf bsdextrautils armhf 2.40.4-5 [84.9 kB]
Get: 31 http://deb.debian.org/debian unstable/main armhf libpipeline1 armhf 1.5.8-1 [35.0 kB]
Get: 32 http://deb.debian.org/debian unstable/main armhf man-db armhf 2.13.0-1 [1382 kB]
Get: 33 http://deb.debian.org/debian unstable/main armhf m4 armhf 1.4.19-7 [272 kB]
Get: 34 http://deb.debian.org/debian unstable/main armhf autoconf all 2.72-3 [493 kB]
Get: 35 http://deb.debian.org/debian unstable/main armhf autotools-dev all 20220109.1 [51.6 kB]
Get: 36 http://deb.debian.org/debian unstable/main armhf automake all 1:1.17-3 [862 kB]
Get: 37 http://deb.debian.org/debian unstable/main armhf autopoint all 0.23.1-1 [770 kB]
Get: 38 http://deb.debian.org/debian unstable/main armhf libdebhelper-perl all 13.24.1 [90.9 kB]
Get: 39 http://deb.debian.org/debian unstable/main armhf libtool all 2.5.4-4 [539 kB]
Get: 40 http://deb.debian.org/debian unstable/main armhf dh-autoreconf all 20 [17.1 kB]
Get: 41 http://deb.debian.org/debian unstable/main armhf libarchive-zip-perl all 1.68-1 [104 kB]
Get: 42 http://deb.debian.org/debian unstable/main armhf libfile-stripnondeterminism-perl all 1.14.1-2 [19.7 kB]
Get: 43 http://deb.debian.org/debian unstable/main armhf dh-strip-nondeterminism all 1.14.1-2 [8620 B]
Get: 44 http://deb.debian.org/debian unstable/main armhf libelf1t64 armhf 0.192-4 [184 kB]
Get: 45 http://deb.debian.org/debian unstable/main armhf dwz armhf 0.15-1+b2 [106 kB]
Get: 46 http://deb.debian.org/debian unstable/main armhf libunistring5 armhf 1.3-1 [444 kB]
Get: 47 http://deb.debian.org/debian unstable/main armhf libicu76 armhf 76.1-3 [9368 kB]
Get: 48 http://deb.debian.org/debian unstable/main armhf libxml2 armhf 2.12.7+dfsg+really2.9.14-0.3+b1 [605 kB]
Get: 49 http://deb.debian.org/debian unstable/main armhf gettext armhf 0.23.1-1 [1560 kB]
Get: 50 http://deb.debian.org/debian unstable/main armhf intltool-debian all 0.35.0+20060710.6 [22.9 kB]
Get: 51 http://deb.debian.org/debian unstable/main armhf po-debconf all 1.0.21+nmu1 [248 kB]
Get: 52 http://deb.debian.org/debian unstable/main armhf debhelper all 13.24.1 [920 kB]
Get: 53 http://deb.debian.org/debian unstable/main armhf dh-python all 6.20250308 [115 kB]
Get: 54 http://deb.debian.org/debian unstable/main armhf xml-core all 0.19 [20.1 kB]
Get: 55 http://deb.debian.org/debian unstable/main armhf docutils-common all 0.21.2+dfsg-2 [128 kB]
Get: 56 http://deb.debian.org/debian unstable/main armhf fonts-dejavu-mono all 2.37-8 [489 kB]
Get: 57 http://deb.debian.org/debian unstable/main armhf fonts-dejavu-core all 2.37-8 [840 kB]
Get: 58 http://deb.debian.org/debian unstable/main armhf libfontenc1 armhf 1:1.1.8-1+b2 [20.9 kB]
Get: 59 http://deb.debian.org/debian unstable/main armhf libbrotli1 armhf 1.1.0-2+b7 [284 kB]
Get: 60 http://deb.debian.org/debian unstable/main armhf libpng16-16t64 armhf 1.6.47-1.1 [264 kB]
Get: 61 http://deb.debian.org/debian unstable/main armhf libfreetype6 armhf 2.13.3+dfsg-1 [385 kB]
Get: 62 http://deb.debian.org/debian unstable/main armhf x11-common all 1:7.7+24 [217 kB]
Get: 63 http://deb.debian.org/debian unstable/main armhf xfonts-encodings all 1:1.0.4-2.2 [577 kB]
Get: 64 http://deb.debian.org/debian unstable/main armhf xfonts-utils armhf 1:7.7+7 [84.2 kB]
Get: 65 http://deb.debian.org/debian unstable/main armhf fonts-urw-base35 all 20200910-8 [10.8 MB]
Get: 66 http://deb.debian.org/debian unstable/main armhf fontconfig-config armhf 2.15.0-2.1 [318 kB]
Get: 67 http://deb.debian.org/debian unstable/main armhf libfontconfig1 armhf 2.15.0-2.1 [371 kB]
Get: 68 http://deb.debian.org/debian unstable/main armhf libpixman-1-0 armhf 0.44.0-3 [164 kB]
Get: 69 http://deb.debian.org/debian unstable/main armhf libxau6 armhf 1:1.0.11-1 [19.7 kB]
Get: 70 http://deb.debian.org/debian unstable/main armhf libxdmcp6 armhf 1:1.1.5-1 [26.4 kB]
Get: 71 http://deb.debian.org/debian unstable/main armhf libxcb1 armhf 1.17.0-2+b1 [140 kB]
Get: 72 http://deb.debian.org/debian unstable/main armhf libx11-data all 2:1.8.10-2 [337 kB]
Get: 73 http://deb.debian.org/debian unstable/main armhf libx11-6 armhf 2:1.8.10-2 [750 kB]
Get: 74 http://deb.debian.org/debian unstable/main armhf libxcb-render0 armhf 1.17.0-2+b1 [114 kB]
Get: 75 http://deb.debian.org/debian unstable/main armhf libxcb-shm0 armhf 1.17.0-2+b1 [105 kB]
Get: 76 http://deb.debian.org/debian unstable/main armhf libxext6 armhf 2:1.3.4-1+b3 [45.2 kB]
Get: 77 http://deb.debian.org/debian unstable/main armhf libxrender1 armhf 1:0.9.10-1.1+b4 [25.0 kB]
Get: 78 http://deb.debian.org/debian unstable/main armhf libcairo2 armhf 1.18.4-1+b1 [443 kB]
Get: 79 http://deb.debian.org/debian unstable/main armhf libcom-err2 armhf 1.47.2-1+b1 [23.6 kB]
Get: 80 http://deb.debian.org/debian unstable/main armhf libidn2-0 armhf 2.3.8-2 [105 kB]
Get: 81 http://deb.debian.org/debian unstable/main armhf libp11-kit0 armhf 0.25.5-3 [385 kB]
Get: 82 http://deb.debian.org/debian unstable/main armhf libtasn1-6 armhf 4.20.0-2 [44.4 kB]
Get: 83 http://deb.debian.org/debian unstable/main armhf libgnutls30t64 armhf 3.8.9-2 [1382 kB]
Get: 84 http://deb.debian.org/debian unstable/main armhf libkrb5support0 armhf 1.21.3-5 [30.4 kB]
Get: 85 http://deb.debian.org/debian unstable/main armhf libk5crypto3 armhf 1.21.3-5 [76.0 kB]
Get: 86 http://deb.debian.org/debian unstable/main armhf libkeyutils1 armhf 1.6.3-4 [8096 B]
Get: 87 http://deb.debian.org/debian unstable/main armhf libkrb5-3 armhf 1.21.3-5 [284 kB]
Get: 88 http://deb.debian.org/debian unstable/main armhf libgssapi-krb5-2 armhf 1.21.3-5 [116 kB]
Get: 89 http://deb.debian.org/debian unstable/main armhf libsasl2-modules-db armhf 2.1.28+dfsg1-9 [18.5 kB]
Get: 90 http://deb.debian.org/debian unstable/main armhf libsasl2-2 armhf 2.1.28+dfsg1-9 [50.4 kB]
Get: 91 http://deb.debian.org/debian unstable/main armhf libldap2 armhf 2.6.9+dfsg-2 [168 kB]
Get: 92 http://deb.debian.org/debian unstable/main armhf libnghttp2-14 armhf 1.64.0-1 [62.9 kB]
Get: 93 http://deb.debian.org/debian unstable/main armhf libnghttp3-9 armhf 1.8.0-1 [59.9 kB]
Get: 94 http://deb.debian.org/debian unstable/main armhf libngtcp2-16 armhf 1.11.0-1 [127 kB]
Get: 95 http://deb.debian.org/debian unstable/main armhf libngtcp2-crypto-gnutls8 armhf 1.11.0-1 [26.7 kB]
Get: 96 http://deb.debian.org/debian unstable/main armhf libpsl5t64 armhf 0.21.2-1.1+b1 [55.8 kB]
Get: 97 http://deb.debian.org/debian unstable/main armhf librtmp1 armhf 2.4+20151223.gitfa8646d.1-2+b5 [53.2 kB]
Get: 98 http://deb.debian.org/debian unstable/main armhf libssh2-1t64 armhf 1.11.1-1 [227 kB]
Get: 99 http://deb.debian.org/debian unstable/main armhf libcurl3t64-gnutls armhf 8.13.0~rc2-1 [323 kB]
Get: 100 http://deb.debian.org/debian unstable/main armhf libdeflate0 armhf 1.23-1+b1 [36.7 kB]
Get: 101 http://deb.debian.org/debian unstable/main armhf libfribidi0 armhf 1.0.16-1 [24.6 kB]
Get: 102 http://deb.debian.org/debian unstable/main armhf libglib2.0-0t64 armhf 2.84.0-2 [1338 kB]
Get: 103 http://deb.debian.org/debian unstable/main armhf libgraphite2-3 armhf 1.3.14-2+b1 [63.1 kB]
Get: 104 http://deb.debian.org/debian unstable/main armhf libharfbuzz0b armhf 10.2.0-1+b1 [419 kB]
Get: 105 http://deb.debian.org/debian unstable/main armhf libhtscodecs2 armhf 1.6.1-2 [63.2 kB]
Get: 106 http://deb.debian.org/debian unstable/main armhf libhts3t64 armhf 1.21+ds-1 [408 kB]
Get: 107 http://deb.debian.org/debian unstable/main armhf libimagequant0 armhf 2.18.0-1+b2 [30.5 kB]
Get: 108 http://deb.debian.org/debian unstable/main armhf libjbig0 armhf 2.1-6.1+b2 [27.3 kB]
Get: 109 http://deb.debian.org/debian unstable/main armhf libjpeg62-turbo armhf 1:2.1.5-3.1 [145 kB]
Get: 110 http://deb.debian.org/debian unstable/main armhf libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [326 kB]
Get: 111 http://deb.debian.org/debian unstable/main armhf libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [116 kB]
Get: 112 http://deb.debian.org/debian unstable/main armhf libjs-sphinxdoc all 8.1.3-5 [30.5 kB]
Get: 113 http://deb.debian.org/debian unstable/main armhf libjson-perl all 4.10000-1 [87.5 kB]
Get: 114 http://deb.debian.org/debian unstable/main armhf liblcms2-2 armhf 2.16-2 [131 kB]
Get: 115 http://deb.debian.org/debian unstable/main armhf liblerc4 armhf 4.0.0+ds-5 [146 kB]
Get: 116 http://deb.debian.org/debian unstable/main armhf libopenjp2-7 armhf 2.5.3-2 [184 kB]
Get: 117 http://deb.debian.org/debian unstable/main armhf libraqm0 armhf 0.10.2-1 [11.6 kB]
Get: 118 http://deb.debian.org/debian unstable/main armhf libsharpyuv0 armhf 1.5.0-0.1 [114 kB]
Get: 119 http://deb.debian.org/debian unstable/main armhf libwebp7 armhf 1.5.0-0.1 [273 kB]
Get: 120 http://deb.debian.org/debian unstable/main armhf libtiff6 armhf 4.5.1+git230720-5 [302 kB]
Get: 121 http://deb.debian.org/debian unstable/main armhf libwebpdemux2 armhf 1.5.0-0.1 [112 kB]
Get: 122 http://deb.debian.org/debian unstable/main armhf libwebpmux3 armhf 1.5.0-0.1 [123 kB]
Get: 123 http://deb.debian.org/debian unstable/main armhf python-babel-localedata all 2.17.0-1 [6050 kB]
Get: 124 http://deb.debian.org/debian unstable/main armhf python3-alabaster all 0.7.16-0.1 [27.9 kB]
Get: 125 http://deb.debian.org/debian unstable/main armhf python3-all armhf 3.13.2-2 [1044 B]
Get: 126 http://deb.debian.org/debian unstable/main armhf python3-autocommand all 2.2.2-3 [13.6 kB]
Get: 127 http://deb.debian.org/debian unstable/main armhf python3-babel all 2.17.0-1 [117 kB]
Get: 128 http://deb.debian.org/debian unstable/main armhf python3-chardet all 5.2.0+dfsg-2 [108 kB]
Get: 129 http://deb.debian.org/debian unstable/main armhf python3-pil armhf 11.1.0-5+b1 [481 kB]
Get: 130 http://deb.debian.org/debian unstable/main armhf python3-cairo armhf 1.27.0-2 [108 kB]
Get: 131 http://deb.debian.org/debian unstable/main armhf python3-freetype all 2.5.1-1 [89.3 kB]
Get: 132 http://deb.debian.org/debian unstable/main armhf python3-rlpycairo all 0.3.0-3 [9904 B]
Get: 133 http://deb.debian.org/debian unstable/main armhf python3-reportlab all 4.3.1-1 [1158 kB]
Get: 134 http://deb.debian.org/debian unstable/main armhf w3c-sgml-lib all 1.3-3 [273 kB]
Get: 135 http://deb.debian.org/debian unstable/main armhf python3-biopython armhf 1.85+dfsg-2+b1 [1645 kB]
Get: 136 http://deb.debian.org/debian unstable/main armhf python3-certifi all 2025.1.31+ds-1 [9652 B]
Get: 137 http://deb.debian.org/debian unstable/main armhf python3-charset-normalizer armhf 3.4.1-1+b1 [118 kB]
Get: 138 http://deb.debian.org/debian unstable/main armhf python3-commonmark all 0.9.1-8 [45.5 kB]
Get: 139 http://deb.debian.org/debian unstable/main armhf python3-dateutil all 2.9.0-3 [79.3 kB]
Get: 140 http://deb.debian.org/debian unstable/main armhf python3-defusedxml all 0.7.1-3 [43.4 kB]
Get: 141 http://deb.debian.org/debian unstable/main armhf python3-roman all 5.0-1 [10.6 kB]
Get: 142 http://deb.debian.org/debian unstable/main armhf python3-docutils all 0.21.2+dfsg-2 [403 kB]
Get: 143 http://deb.debian.org/debian unstable/main armhf python3-idna all 3.10-1 [42.0 kB]
Get: 144 http://deb.debian.org/debian unstable/main armhf python3-imagesize all 1.4.1-1 [6688 B]
Get: 145 http://deb.debian.org/debian unstable/main armhf python3-more-itertools all 10.6.0-1 [65.3 kB]
Get: 146 http://deb.debian.org/debian unstable/main armhf python3-typing-extensions all 4.12.2-2 [73.0 kB]
Get: 147 http://deb.debian.org/debian unstable/main armhf python3-typeguard all 4.4.2-1 [37.3 kB]
Get: 148 http://deb.debian.org/debian unstable/main armhf python3-inflect all 7.3.1-2 [32.4 kB]
Get: 149 http://deb.debian.org/debian unstable/main armhf python3-jaraco.functools all 4.1.0-1 [12.0 kB]
Get: 150 http://deb.debian.org/debian unstable/main armhf python3-pkg-resources all 75.8.0-1 [222 kB]
Get: 151 http://deb.debian.org/debian unstable/main armhf python3-jaraco.text all 4.0.0-1 [11.4 kB]
Get: 152 http://deb.debian.org/debian unstable/main armhf python3-zipp all 3.21.0-1 [10.6 kB]
Get: 153 http://deb.debian.org/debian unstable/main armhf python3-setuptools all 75.8.0-1 [724 kB]
Get: 154 http://deb.debian.org/debian unstable/main armhf python3-jaraco.context all 6.0.1-1 [8276 B]
Get: 155 http://deb.debian.org/debian unstable/main armhf python3-markupsafe armhf 2.1.5-1+b3 [13.6 kB]
Get: 156 http://deb.debian.org/debian unstable/main armhf python3-jinja2 all 3.1.5-2 [107 kB]
Get: 157 http://deb.debian.org/debian unstable/main armhf python3-packaging all 24.2-1 [55.3 kB]
Get: 158 http://deb.debian.org/debian unstable/main armhf python3-pytz all 2025.1-3 [150 kB]
Get: 159 http://deb.debian.org/debian unstable/main armhf python3-tz all 2025.1-3 [4004 B]
Get: 160 http://deb.debian.org/debian unstable/main armhf python3-pandas-lib armhf 2.2.3+dfsg-8+b1 [4141 kB]
Get: 161 http://deb.debian.org/debian unstable/main armhf python3-pandas all 2.2.3+dfsg-8 [3097 kB]
Get: 162 http://deb.debian.org/debian unstable/main armhf python3-pysam armhf 0.23.0+ds-1+b1 [3448 kB]
Get: 163 http://deb.debian.org/debian unstable/main armhf python3-pybedtools armhf 0.10.0-4+b1 [12.1 MB]
Get: 164 http://deb.debian.org/debian unstable/main armhf python3-pygments all 2.18.0+dfsg-2 [836 kB]
Get: 165 http://deb.debian.org/debian unstable/main armhf sphinx-common all 8.1.3-5 [617 kB]
Get: 166 http://deb.debian.org/debian unstable/main armhf python3-urllib3 all 2.3.0-2 [114 kB]
Get: 167 http://deb.debian.org/debian unstable/main armhf python3-requests all 2.32.3+dfsg-4 [72.1 kB]
Get: 168 http://deb.debian.org/debian unstable/main armhf python3-snowballstemmer all 2.2.0-4 [58.0 kB]
Get: 169 http://deb.debian.org/debian unstable/main armhf python3-sphinx all 8.1.3-5 [468 kB]
Get: 170 http://deb.debian.org/debian unstable/main armhf python3-recommonmark all 0.7.1+ds-8 [17.6 kB]
Get: 171 http://deb.debian.org/debian unstable/main armhf python3-six all 1.17.0-1 [16.5 kB]
Fetched 96.0 MB in 8s (12.5 MB/s)
Preconfiguring packages ...
Selecting previously unselected package libpython3.13-minimal:armhf.
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Unpacking libpython3.13-minimal:armhf (3.13.2-2) ...
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Setting up libpython3.13-minimal:armhf (3.13.2-2) ...
Setting up libexpat1:armhf (2.7.0-1) ...
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Selecting previously unselected package python3-minimal.
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Unpacking libffi8:armhf (3.4.7-1) ...
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Unpacking readline-common (8.2-6) ...
Selecting previously unselected package libreadline8t64:armhf.
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Adding 'diversion of /lib/arm-linux-gnueabihf/libhistory.so.8 to /lib/arm-linux-gnueabihf/libhistory.so.8.usr-is-merged by libreadline8t64'
Adding 'diversion of /lib/arm-linux-gnueabihf/libhistory.so.8.2 to /lib/arm-linux-gnueabihf/libhistory.so.8.2.usr-is-merged by libreadline8t64'
Adding 'diversion of /lib/arm-linux-gnueabihf/libreadline.so.8 to /lib/arm-linux-gnueabihf/libreadline.so.8.usr-is-merged by libreadline8t64'
Adding 'diversion of /lib/arm-linux-gnueabihf/libreadline.so.8.2 to /lib/arm-linux-gnueabihf/libreadline.so.8.2.usr-is-merged by libreadline8t64'
Unpacking libreadline8t64:armhf (8.2-6) ...
Selecting previously unselected package libpython3.13-stdlib:armhf.
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Unpacking libpython3.13-stdlib:armhf (3.13.2-2) ...
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Setting up python3-minimal (3.13.2-2) ...
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Preparing to unpack .../000-python3_3.13.2-2_armhf.deb ...
Unpacking python3 (3.13.2-2) ...
Selecting previously unselected package python3-numpy-dev:armhf.
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Unpacking python3-numpy-dev:armhf (1:2.2.3+ds-5) ...
Selecting previously unselected package libblas3:armhf.
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Selecting previously unselected package sgml-base.
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Unpacking gettext (0.23.1-1) ...
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invoke-rc.d: could not determine current runlevel
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Setting up libcom-err2:armhf (1.47.2-1+b1) ...
Setting up file (1:5.46-2) ...
Setting up libjbig0:armhf (2.1-6.1+b2) ...
Setting up libelf1t64:armhf (0.192-4) ...
Setting up python-babel-localedata (2.17.0-1) ...
Setting up libkrb5support0:armhf (1.21.3-5) ...
Setting up libsasl2-modules-db:armhf (2.1.28+dfsg1-9) ...
Setting up tzdata (2025a-2) ...

Current default time zone: 'Etc/UTC'
Local time is now:      Tue Mar 18 08:08:42 UTC 2025.
Universal Time is now:  Tue Mar 18 08:08:42 UTC 2025.
Run 'dpkg-reconfigure tzdata' if you wish to change it.

Setting up libfontenc1:armhf (1:1.1.8-1+b2) ...
Setting up autotools-dev (20220109.1) ...
Setting up libblas3:armhf (3.12.1-2) ...
update-alternatives: using /usr/lib/arm-linux-gnueabihf/blas/libblas.so.3 to provide /usr/lib/arm-linux-gnueabihf/libblas.so.3 (libblas.so.3-arm-linux-gnueabihf) in auto mode
Setting up libjpeg62-turbo:armhf (1:2.1.5-3.1) ...
Setting up libx11-data (2:1.8.10-2) ...
Setting up xfonts-encodings (1:1.0.4-2.2) ...
Setting up libfribidi0:armhf (1.0.16-1) ...
Setting up libimagequant0:armhf (2.18.0-1+b2) ...
Setting up libunistring5:armhf (1.3-1) ...
Setting up fonts-dejavu-mono (2.37-8) ...
Setting up libpng16-16t64:armhf (1.6.47-1.1) ...
Setting up python3-numpy-dev:armhf (1:2.2.3+ds-5) ...
Setting up autopoint (0.23.1-1) ...
Setting up fonts-dejavu-core (2.37-8) ...
Setting up libk5crypto3:armhf (1.21.3-5) ...
Setting up libsasl2-2:armhf (2.1.28+dfsg1-9) ...
Setting up libgfortran5:armhf (14.2.0-19) ...
Setting up autoconf (2.72-3) ...
Setting up libnghttp3-9:armhf (1.8.0-1) ...
Setting up libwebp7:armhf (1.5.0-0.1) ...
Setting up libffi8:armhf (3.4.7-1) ...
Setting up dwz (0.15-1+b2) ...
Setting up sensible-utils (0.0.24) ...
Setting up libtiff6:armhf (4.5.1+git230720-5) ...
Setting up libuchardet0:armhf (0.0.8-1+b2) ...
Setting up libjson-perl (4.10000-1) ...
Setting up libtasn1-6:armhf (4.20.0-2) ...
Setting up libopenjp2-7:armhf (2.5.3-2) ...
Setting up libx11-6:armhf (2:1.8.10-2) ...
Setting up netbase (6.5) ...
Setting up libngtcp2-16:armhf (1.11.0-1) ...
Setting up sgml-base (1.31) ...
Setting up libkrb5-3:armhf (1.21.3-5) ...
Setting up libicu76:armhf (76.1-3) ...
Setting up libssh2-1t64:armhf (1.11.1-1) ...
Setting up libjs-jquery (3.6.1+dfsg+~3.5.14-1) ...
Setting up openssl (3.4.1-1) ...
Setting up libwebpmux3:armhf (1.5.0-0.1) ...
Setting up readline-common (8.2-6) ...
Setting up libxml2:armhf (2.12.7+dfsg+really2.9.14-0.3+b1) ...
Setting up libldap2:armhf (2.6.9+dfsg-2) ...
Setting up libjs-underscore (1.13.4~dfsg+~1.11.4-3) ...
Setting up automake (1:1.17-3) ...
update-alternatives: using /usr/bin/automake-1.17 to provide /usr/bin/automake (automake) in auto mode
Setting up libfile-stripnondeterminism-perl (1.14.1-2) ...
Setting up liblapack3:armhf (3.12.1-2) ...
update-alternatives: using /usr/lib/arm-linux-gnueabihf/lapack/liblapack.so.3 to provide /usr/lib/arm-linux-gnueabihf/liblapack.so.3 (liblapack.so.3-arm-linux-gnueabihf) in auto mode
Setting up gettext (0.23.1-1) ...
Setting up libxrender1:armhf (1:0.9.10-1.1+b4) ...
Setting up libtool (2.5.4-4) ...
Setting up fontconfig-config (2.15.0-2.1) ...
Setting up libwebpdemux2:armhf (1.5.0-0.1) ...
Setting up libxext6:armhf (2:1.3.4-1+b3) ...
Setting up libidn2-0:armhf (2.3.8-2) ...
Setting up intltool-debian (0.35.0+20060710.6) ...
Setting up dh-autoreconf (20) ...
Setting up ca-certificates (20241223) ...
Updating certificates in /etc/ssl/certs...
152 added, 0 removed; done.
Setting up libglib2.0-0t64:armhf (2.84.0-2) ...
No schema files found: doing nothing.
Setting up libfreetype6:armhf (2.13.3+dfsg-1) ...
Setting up libp11-kit0:armhf (0.25.5-3) ...
Setting up libgssapi-krb5-2:armhf (1.21.3-5) ...
Setting up libjs-sphinxdoc (8.1.3-5) ...
Setting up libreadline8t64:armhf (8.2-6) ...
Setting up dh-strip-nondeterminism (1.14.1-2) ...
Setting up groff-base (1.23.0-7) ...
Setting up xml-core (0.19) ...
Setting up libharfbuzz0b:armhf (10.2.0-1+b1) ...
Setting up libfontconfig1:armhf (2.15.0-2.1) ...
Setting up libpython3.13-stdlib:armhf (3.13.2-2) ...
Setting up libpython3-stdlib:armhf (3.13.2-2) ...
Setting up libgnutls30t64:armhf (3.8.9-2) ...
Setting up python3.13 (3.13.2-2) ...
Setting up po-debconf (1.0.21+nmu1) ...
Setting up libpsl5t64:armhf (0.21.2-1.1+b1) ...
Setting up python3 (3.13.2-2) ...
Setting up python3-zipp (3.21.0-1) ...
Setting up python3-freetype (2.5.1-1) ...
Setting up xfonts-utils (1:7.7+7) ...
Setting up python3-autocommand (2.2.2-3) ...
Setting up man-db (2.13.0-1) ...
Not building database; man-db/auto-update is not 'true'.
Setting up python3-markupsafe (2.1.5-1+b3) ...
Setting up libcairo2:armhf (1.18.4-1+b1) ...
Setting up python3-six (1.17.0-1) ...
Setting up python3-roman (5.0-1) ...
Setting up python3-jinja2 (3.1.5-2) ...
Setting up python3-pygments (2.18.0+dfsg-2) ...
Setting up python3-packaging (24.2-1) ...
Setting up python3-chardet (5.2.0+dfsg-2) ...
Setting up python3-certifi (2025.1.31+ds-1) ...
Setting up librtmp1:armhf (2.4+20151223.gitfa8646d.1-2+b5) ...
Setting up python3-snowballstemmer (2.2.0-4) ...
Setting up libraqm0:armhf (0.10.2-1) ...
Setting up sphinx-common (8.1.3-5) ...
Setting up python3-idna (3.10-1) ...
Setting up python3-typing-extensions (4.12.2-2) ...
Setting up python3-numpy (1:2.2.3+ds-5) ...
Setting up python3-urllib3 (2.3.0-2) ...
Setting up python3-dateutil (2.9.0-3) ...
Setting up libngtcp2-crypto-gnutls8:armhf (1.11.0-1) ...
Setting up python3-imagesize (1.4.1-1) ...
Setting up python3-commonmark (0.9.1-8) ...
Setting up dh-python (6.20250308) ...
Setting up python3-more-itertools (10.6.0-1) ...
Setting up python3-cairo (1.27.0-2) ...
Setting up python3-jaraco.functools (4.1.0-1) ...
Setting up python3-jaraco.context (6.0.1-1) ...
Setting up python3-babel (2.17.0-1) ...
update-alternatives: using /usr/bin/pybabel-python3 to provide /usr/bin/pybabel (pybabel) in auto mode
Setting up python3-defusedxml (0.7.1-3) ...
Setting up python3-charset-normalizer (3.4.1-1+b1) ...
Setting up python3-alabaster (0.7.16-0.1) ...
Setting up python3-pandas-lib:armhf (2.2.3+dfsg-8+b1) ...
Setting up python3-typeguard (4.4.2-1) ...
Setting up libcurl3t64-gnutls:armhf (8.13.0~rc2-1) ...
Setting up python3-all (3.13.2-2) ...
Setting up debhelper (13.24.1) ...
Setting up python3-pytz (2025.1-3) ...
Setting up fonts-urw-base35 (20200910-8) ...
Setting up python3-tz (2025.1-3) ...
Setting up python3-pil:armhf (11.1.0-5+b1) ...
Setting up python3-inflect (7.3.1-2) ...
Setting up python3-pandas (2.2.3+dfsg-8) ...
Setting up python3-rlpycairo (0.3.0-3) ...
Setting up python3-jaraco.text (4.0.0-1) ...
Setting up python3-requests (2.32.3+dfsg-4) ...
Setting up python3-reportlab (4.3.1-1) ...
Setting up libhts3t64:armhf (1.21+ds-1) ...
Setting up python3-pkg-resources (75.8.0-1) ...
Setting up python3-pysam (0.23.0+ds-1+b1) ...
Setting up python3-setuptools (75.8.0-1) ...
Setting up python3-pybedtools (0.10.0-4+b1) ...
Processing triggers for libc-bin (2.41-6) ...
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 (1.85+dfsg-2+b1) ...
Processing triggers for sgml-base (1.31) ...
Setting up python3-docutils (0.21.2+dfsg-2) ...
Setting up python3-sphinx (8.1.3-5) ...
Setting up python3-recommonmark (0.7.1+ds-8) ...
Processing triggers for ca-certificates (20241223) ...
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: user script /srv/workspace/pbuilder/30084/tmp/hooks/A99_set_merged_usr starting
Not re-configuring usrmerge for unstable
I: user script /srv/workspace/pbuilder/30084/tmp/hooks/A99_set_merged_usr finished
hostname: Name or service not known
I: Running cd /build/reproducible-path/mirtop-0.4.28/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-genchanges -S  > ../mirtop_0.4.28-3_source.changes
dpkg-buildpackage: info: source package mirtop
dpkg-buildpackage: info: source version 0.4.28-3
dpkg-buildpackage: info: source distribution unstable
dpkg-buildpackage: info: source changed by Alexandre Detiste <tchet@debian.org>
 dpkg-source --before-build .
dpkg-buildpackage: info: host architecture armhf
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
I: pybuild base:311: python3.13 setup.py clean 
/usr/lib/python3/dist-packages/setuptools/_distutils/dist.py:270: 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-armv7l' does not exist -- can't clean it
'build/scripts-3.13' 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
I: pybuild base:311: python3.13 setup.py config 
/usr/lib/python3/dist-packages/setuptools/_distutils/dist.py:270: UserWarning: Unknown distribution option: 'test_suite'
  warnings.warn(msg)
running config
   dh_auto_build -O--buildsystem=pybuild
	pybuild --build -i python{version} -p 3.13
I: pybuild base:311: /usr/bin/python3 setup.py build 
/usr/lib/python3/dist-packages/setuptools/_distutils/dist.py:270: 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/install.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/__init__.py -> /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
creating /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/realign.py -> /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/__init__.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/fasta.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
creating /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
copying mirtop/libs/utils.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/logger.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/spikeins.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/sql.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/config.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
creating /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
copying mirtop/sql/sql.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/gff
copying mirtop/gff/read.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/convert.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/validator.py -> /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/header.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/__init__.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/classgff.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
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/srnabench.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/prost.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
creating /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
copying mirtop/bam/filter.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/exporter
copying mirtop/exporter/seqbuster.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
copying mirtop/exporter/fasta.py -> /build/reproducible-path/mirtop-0.4.28/.pybuild/cpython3_3.13_mirtop/build/mirtop/exporter
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'
   debian/rules execute_after_dh_auto_build
make[1]: Entering directory '/build/reproducible-path/mirtop-0.4.28'
PYTHONPATH=. python3 -m sphinx -N -bman docs/ build/man # Manpage generator
Running Sphinx v8.1.3
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. [docutils]
/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. [docutils]
/build/reproducible-path/mirtop-0.4.28/docs/code_structure.md:6: WARNING: Block quote ends without a blank line; unexpected unindent. [docutils]
/build/reproducible-path/mirtop-0.4.28/docs/code_structure.md:12: ERROR: Unexpected indentation. [docutils]
/build/reproducible-path/mirtop-0.4.28/docs/code_structure.md:13: WARNING: Block quote ends without a blank line; unexpected unindent. [docutils]
/build/reproducible-path/mirtop-0.4.28/docs/code_structure.md:24: ERROR: Unexpected indentation. [docutils]
/build/reproducible-path/mirtop-0.4.28/docs/code_structure.md:25: WARNING: Block quote ends without a blank line; unexpected unindent. [docutils]
/build/reproducible-path/mirtop-0.4.28/docs/code_structure.md:39: WARNING: Bullet list ends without a blank line; unexpected unindent. [docutils]
/build/reproducible-path/mirtop-0.4.28/docs/how_to_contribute.md:10: WARNING: Bullet list ends without a blank line; unexpected unindent. [docutils]
/build/reproducible-path/mirtop-0.4.28/docs/how_to_contribute.md:15: WARNING: Inline literal start-string without end-string. [docutils]
/build/reproducible-path/mirtop-0.4.28/docs/how_to_contribute.md:30: ERROR: Unexpected indentation. [docutils]
/build/reproducible-path/mirtop-0.4.28/docs/how_to_contribute.md:31: WARNING: Definition list ends without a blank line; unexpected unindent. [docutils]
/build/reproducible-path/mirtop-0.4.28/docs/how_to_contribute.md:31: WARNING: Inline literal start-string without end-string. [docutils]
/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. [docutils]
/build/reproducible-path/mirtop-0.4.28/docs/how_to_contribute.md:38: ERROR: Unexpected indentation. [docutils]
/build/reproducible-path/mirtop-0.4.28/docs/how_to_contribute.md:36: WARNING: Inline literal start-string without end-string. [docutils]
/build/reproducible-path/mirtop-0.4.28/docs/how_to_contribute.md:42: WARNING: Block quote ends without a blank line; unexpected unindent. [docutils]
/build/reproducible-path/mirtop-0.4.28/docs/how_to_contribute.md:42: WARNING: Inline literal start-string without end-string. [docutils]
/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. [docutils]
/build/reproducible-path/mirtop-0.4.28/docs/how_to_contribute.md:46: WARNING: Inline literal start-string without end-string. [docutils]
/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. [docutils]
/build/reproducible-path/mirtop-0.4.28/docs/how_to_contribute.md:56: WARNING: Definition list ends without a blank line; unexpected unindent. [docutils]
/build/reproducible-path/mirtop-0.4.28/docs/how_to_contribute.md:56: WARNING: Inline literal start-string without end-string. [docutils]
/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. [docutils]
/build/reproducible-path/mirtop-0.4.28/docs/how_to_contribute.md:60: WARNING: Inline literal start-string without end-string. [docutils]
/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. [docutils]
/build/reproducible-path/mirtop-0.4.28/docs/how_to_contribute.md:64: WARNING: Definition list ends without a blank line; unexpected unindent. [docutils]
/build/reproducible-path/mirtop-0.4.28/docs/how_to_contribute.md:64: WARNING: Inline literal start-string without end-string. [docutils]
/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. [docutils]
/build/reproducible-path/mirtop-0.4.28/docs/how_to_contribute.md:86: WARNING: Inline literal start-string without end-string. [docutils]
/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. [docutils]
/build/reproducible-path/mirtop-0.4.28/docs/how_to_contribute.md:89: ERROR: Unexpected indentation. [docutils]
/build/reproducible-path/mirtop-0.4.28/docs/how_to_contribute.md:92: WARNING: Inline literal start-string without end-string. [docutils]
/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. [docutils]
/build/reproducible-path/mirtop-0.4.28/docs/how_to_contribute.md:98: WARNING: Inline literal start-string without end-string. [docutils]
/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. [docutils]
/build/reproducible-path/mirtop-0.4.28/docs/how_to_contribute.md:101: ERROR: Unexpected indentation. [docutils]
/build/reproducible-path/mirtop-0.4.28/docs/how_to_contribute.md:104: ERROR: Unexpected indentation. [docutils]
/build/reproducible-path/mirtop-0.4.28/docs/how_to_contribute.md:107: WARNING: Definition list ends without a blank line; unexpected unindent. [docutils]
/build/reproducible-path/mirtop-0.4.28/docs/how_to_contribute.md:111: WARNING: Inline literal start-string without end-string. [docutils]
/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. [docutils]
/build/reproducible-path/mirtop-0.4.28/docs/installation.md:21: WARNING: Inline literal start-string without end-string. [docutils]
/build/reproducible-path/mirtop-0.4.28/docs/installation.md:35: WARNING: Inline literal start-string without end-string. [docutils]
/build/reproducible-path/mirtop-0.4.28/docs/installation.md:35: WARNING: Inline interpreted text or phrase reference start-string without end-string. [docutils]
/build/reproducible-path/mirtop-0.4.28/docs/sql_usage.md:14: ERROR: Unexpected indentation. [docutils]
/build/reproducible-path/mirtop-0.4.28/docs/sql_usage.md:7: WARNING: Inline literal start-string without end-string. [docutils]
/build/reproducible-path/mirtop-0.4.28/docs/sql_usage.md:26: WARNING: Option list ends without a blank line; unexpected unindent. [docutils]
/build/reproducible-path/mirtop-0.4.28/docs/sql_usage.md:35: ERROR: Unexpected indentation. [docutils]
/build/reproducible-path/mirtop-0.4.28/docs/sql_usage.md:36: WARNING: Block quote ends without a blank line; unexpected unindent. [docutils]
/build/reproducible-path/mirtop-0.4.28/docs/sql_usage.md:51: ERROR: Unexpected indentation. [docutils]
/build/reproducible-path/mirtop-0.4.28/docs/sql_usage.md:58: ERROR: Unexpected indentation. [docutils]
/build/reproducible-path/mirtop-0.4.28/docs/sql_usage.md:62: WARNING: Inline literal start-string without end-string. [docutils]
/build/reproducible-path/mirtop-0.4.28/docs/sql_usage.md:115: ERROR: Unexpected indentation. [docutils]
/build/reproducible-path/mirtop-0.4.28/docs/sql_usage.md:113: WARNING: Inline literal start-string without end-string. [docutils]
/build/reproducible-path/mirtop-0.4.28/docs/sql_usage.md:121: WARNING: Block quote ends without a blank line; unexpected unindent. [docutils]
/build/reproducible-path/mirtop-0.4.28/docs/sql_usage.md:121: WARNING: Inline literal start-string without end-string. [docutils]
/build/reproducible-path/mirtop-0.4.28/docs/sql_usage.md:121: WARNING: Inline interpreted text or phrase reference start-string without end-string. [docutils]
/build/reproducible-path/mirtop-0.4.28/docs/sql_usage.md:135: ERROR: Unexpected indentation. [docutils]
/build/reproducible-path/mirtop-0.4.28/docs/sql_usage.md:132: WARNING: Inline literal start-string without end-string. [docutils]
/build/reproducible-path/mirtop-0.4.28/docs/sql_usage.md:148: WARNING: Block quote ends without a blank line; unexpected unindent. [docutils]
/build/reproducible-path/mirtop-0.4.28/docs/sql_usage.md:148: WARNING: Inline literal start-string without end-string. [docutils]
/build/reproducible-path/mirtop-0.4.28/docs/sql_usage.md:148: WARNING: Inline interpreted text or phrase reference start-string without end-string. [docutils]
/build/reproducible-path/mirtop-0.4.28/docs/sql_usage.md:156: WARNING: Inline literal start-string without end-string. [docutils]
/build/reproducible-path/mirtop-0.4.28/docs/sql_usage.md:195: WARNING: Inline literal start-string without end-string. [docutils]
/build/reproducible-path/mirtop-0.4.28/docs/sql_usage.md:195: WARNING: Inline interpreted text or phrase reference start-string without end-string. [docutils]
/build/reproducible-path/mirtop-0.4.28/docs/sql_usage.md:201: WARNING: Inline literal start-string without end-string. [docutils]
/build/reproducible-path/mirtop-0.4.28/docs/sql_usage.md:219: WARNING: Inline literal start-string without end-string. [docutils]
/build/reproducible-path/mirtop-0.4.28/docs/sql_usage.md:219: WARNING: Inline interpreted text or phrase reference start-string without end-string. [docutils]
/build/reproducible-path/mirtop-0.4.28/docs/sql_usage.md:229: ERROR: Unexpected indentation. [docutils]
/build/reproducible-path/mirtop-0.4.28/docs/sql_usage.md:227: WARNING: Inline literal start-string without end-string. [docutils]
/build/reproducible-path/mirtop-0.4.28/docs/sql_usage.md:230: WARNING: Block quote ends without a blank line; unexpected unindent. [docutils]
/build/reproducible-path/mirtop-0.4.28/docs/sql_usage.md:234: WARNING: Definition list ends without a blank line; unexpected unindent. [docutils]
/build/reproducible-path/mirtop-0.4.28/docs/sql_usage.md:234: WARNING: Inline literal start-string without end-string. [docutils]
/build/reproducible-path/mirtop-0.4.28/docs/sql_usage.md:238: WARNING: Inline literal start-string without end-string. [docutils]
/build/reproducible-path/mirtop-0.4.28/docs/sql_usage.md:245: WARNING: Inline literal start-string without end-string. [docutils]
/build/reproducible-path/mirtop-0.4.28/docs/sql_usage.md:245: WARNING: Inline interpreted text or phrase reference start-string without end-string. [docutils]
/build/reproducible-path/mirtop-0.4.28/docs/sql_usage.md:358: WARNING: Inline literal start-string without end-string. [docutils]
/build/reproducible-path/mirtop-0.4.28/docs/sql_usage.md:364: WARNING: Inline literal start-string without end-string. [docutils]
/build/reproducible-path/mirtop-0.4.28/docs/sql_usage.md:364: WARNING: Inline interpreted text or phrase reference start-string without end-string. [docutils]
/build/reproducible-path/mirtop-0.4.28/docs/sql_usage.md:387: WARNING: Inline literal start-string without end-string. [docutils]
/build/reproducible-path/mirtop-0.4.28/docs/sql_usage.md:397: WARNING: Inline literal start-string without end-string. [docutils]
/build/reproducible-path/mirtop-0.4.28/docs/sql_usage.md:397: WARNING: Inline interpreted text or phrase reference start-string without end-string. [docutils]
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
preparing documents... done
copying assets... 
copying assets: 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'
   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 --dest-dir=/build/reproducible-path/mirtop-0.4.28/debian/tmp
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:270: UserWarning: Unknown distribution option: 'test_suite'
  warnings.warn(msg)
running install
/usr/lib/python3/dist-packages/setuptools/_distutils/cmd.py:79: 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/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/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/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/__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/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/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/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/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/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/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
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/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/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/__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/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/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/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/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/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/simulator.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/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/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/__init__.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/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
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/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/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/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/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/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/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/__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/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/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/update.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/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/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/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/prost.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
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/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
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/command_line.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/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/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
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
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/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/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/__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/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/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/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/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/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/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/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/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/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/__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/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/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/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/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/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/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/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/sql/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/__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/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/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/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/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/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/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/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/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/__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/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/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/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/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/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/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/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/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/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/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/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/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/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/exporter/fasta.py to fasta.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
   dh_install -O--buildsystem=pybuild
	install -m0755 -d debian/mirtop/usr/bin
	cp --reflink=auto -a ./debian/python3-mirtop/usr/bin/mirtop debian/mirtop/usr/bin/
   debian/rules execute_after_dh_install
make[1]: Entering directory '/build/reproducible-path/mirtop-0.4.28'
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/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
	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
   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: 6.20250308
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: 3.13 (default=3.13)
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/python3.13/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/mirtop/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755
	find debian/python3-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
dpkg-gencontrol: warning: Depends field of package python3-mirtop: substitution variable ${sphinxdoc:Depends} used, but is not defined
	chmod 0644 -- debian/mirtop/DEBIAN/control
	chmod 0644 -- debian/python3-mirtop/DEBIAN/control
   dh_md5sums -O--buildsystem=pybuild
	install -m0755 -d debian/python3-mirtop/DEBIAN
	install -m0755 -d debian/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 'mirtop' in '../mirtop_0.4.28-3_all.deb'.
dpkg-deb: building package 'python3-mirtop' in '../python3-mirtop_0.4.28-3_all.deb'.
 dpkg-genbuildinfo --build=binary -O../mirtop_0.4.28-3_armhf.buildinfo
 dpkg-genchanges --build=binary -O../mirtop_0.4.28-3_armhf.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: not including original source code in upload
I: copying local configuration
I: user script /srv/workspace/pbuilder/30084/tmp/hooks/B01_cleanup starting
I: user script /srv/workspace/pbuilder/30084/tmp/hooks/B01_cleanup finished
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/30084 and its subdirectories
I: Current time: Tue Mar 18 22:17:37 +14 2025
I: pbuilder-time-stamp: 1742285857