I: pbuilder: network access will be disabled during build I: Current time: Thu Dec 25 03:15:10 +14 2025 I: pbuilder-time-stamp: 1766582110 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/trixie-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: using eatmydata during job I: Copying source file I: copying [pairtools_1.1.0-1.dsc] I: copying [./pairtools_1.1.0.orig.tar.gz] I: copying [./pairtools_1.1.0-1.debian.tar.xz] I: Extracting source gpgv: Signature made Mon Nov 18 22:24:44 2024 gpgv: using RSA key 8F6DE104377F3B11E741748731F3144544A1741A gpgv: issuer "tchet@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./pairtools_1.1.0-1.dsc: no acceptable signature found dpkg-source: info: extracting pairtools in pairtools-1.1.0 dpkg-source: info: unpacking pairtools_1.1.0.orig.tar.gz dpkg-source: info: unpacking pairtools_1.1.0-1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying makefile dpkg-source: info: applying fix-spelling dpkg-source: info: applying tests-to-python3 dpkg-source: info: applying fix-pysam-ftbfs.patch dpkg-source: info: applying do-not-run-coverage.patch dpkg-source: info: applying no_install_depends_cython.patch dpkg-source: info: applying remove_pipes.patch dpkg-source: info: applying syntax_warning.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/128672/tmp/hooks/D01_modify_environment starting debug: Running on ionos16-i386. 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 Dec 24 13:15 /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/128672/tmp/hooks/D01_modify_environment finished I: user script /srv/workspace/pbuilder/128672/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]="32" [3]="1" [4]="release" [5]="i686-pc-linux-gnu") BASH_VERSION='5.2.32(1)-release' BUILDDIR=/build/reproducible-path BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' BUILDUSERNAME=pbuilder2 BUILD_ARCH=i386 DEBIAN_FRONTEND=noninteractive DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=21 ' DIRSTACK=() DISTRIBUTION=trixie EUID=0 FUNCNAME=([0]="Echo" [1]="main") GROUPS=() HOME=/root HOSTNAME=i-capture-the-hostname HOSTTYPE=i686 HOST_ARCH=i386 IFS=' ' INVOCATION_ID=3369170453d64fa486ab11ddec682c10 LANG=C LANGUAGE=de_CH:de LC_ALL=C LD_LIBRARY_PATH=/usr/lib/libeatmydata LD_PRELOAD=libeatmydata.so MACHTYPE=i686-pc-linux-gnu MAIL=/var/mail/root OPTERR=1 OPTIND=1 OSTYPE=linux-gnu 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=128672 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.xW92ICgF/pbuilderrc_Ow8Z --distribution trixie --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.xW92ICgF/b2 --logfile b2/build.log pairtools_1.1.0-1.dsc' SUDO_GID=112 SUDO_UID=107 SUDO_USER=jenkins TERM=unknown TZ=/usr/share/zoneinfo/Etc/GMT-14 UID=0 USER=root _='I: set' http_proxy=http://213.165.73.152:3128 I: uname -a Linux i-capture-the-hostname 6.1.0-27-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.115-1 (2024-11-01) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Aug 4 2024 /bin -> usr/bin I: user script /srv/workspace/pbuilder/128672/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: i386 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13), dh-sequence-python3, python3-all-dev, cython3, python-is-python3, python3-setuptools, python3-bioframe, python3-click, python3-exceptiongroup, python3-numpy, python3-pandas, python3-pysam (>= 0.20.0+ds-3~), python3-pytest, python3-scipy, libhts-dev, python3-yaml dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19956 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-dev; however: Package python3-all-dev is not installed. pbuilder-satisfydepends-dummy depends on cython3; however: Package cython3 is not installed. pbuilder-satisfydepends-dummy depends on python-is-python3; however: Package python-is-python3 is not installed. pbuilder-satisfydepends-dummy depends on python3-setuptools; however: Package python3-setuptools is not installed. pbuilder-satisfydepends-dummy depends on python3-bioframe; however: Package python3-bioframe is not installed. pbuilder-satisfydepends-dummy depends on python3-click; however: Package python3-click is not installed. pbuilder-satisfydepends-dummy depends on python3-exceptiongroup; however: Package python3-exceptiongroup is not installed. pbuilder-satisfydepends-dummy depends on python3-numpy; however: Package python3-numpy is not installed. pbuilder-satisfydepends-dummy depends on python3-pandas; however: Package python3-pandas is not installed. pbuilder-satisfydepends-dummy depends on python3-pysam (>= 0.20.0+ds-3~); however: Package python3-pysam is not installed. pbuilder-satisfydepends-dummy depends on python3-pytest; however: Package python3-pytest is not installed. pbuilder-satisfydepends-dummy depends on python3-scipy; however: Package python3-scipy is not installed. pbuilder-satisfydepends-dummy depends on libhts-dev; however: Package libhts-dev is not installed. pbuilder-satisfydepends-dummy depends on python3-yaml; however: Package python3-yaml 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} blt{a} bsdextrautils{a} ca-certificates{a} comerr-dev{a} cython3{a} debhelper{a} dh-autoreconf{a} dh-python{a} dh-strip-nondeterminism{a} dwz{a} file{a} fontconfig-config{a} fonts-dejavu-core{a} fonts-dejavu-mono{a} fonts-lyx{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} krb5-multidev{a} libarchive-zip-perl{a} libblas3{a} libbrotli-dev{a} libbrotli1{a} libbz2-dev{a} libcom-err2{a} libcurl3t64-gnutls{a} libcurl4-gnutls-dev{a} libdebhelper-perl{a} libdeflate-dev{a} libdeflate0{a} libelf1t64{a} libevent-2.1-7t64{a} libexpat1{a} libexpat1-dev{a} libfile-stripnondeterminism-perl{a} libfontconfig1{a} libfreetype6{a} libfribidi0{a} libgfortran5{a} libglib2.0-0t64{a} libgmp-dev{a} libgmpxx4ldbl{a} libgnutls-dane0t64{a} libgnutls-openssl27t64{a} libgnutls28-dev{a} libgraphite2-3{a} libgssapi-krb5-2{a} libgssrpc4t64{a} libharfbuzz0b{a} libhts-dev{a} libhts3t64{a} libhtscodecs2{a} libicu72{a} libidn2-dev{a} libimagequant0{a} libjbig0{a} libjpeg62-turbo{a} libjs-jquery{a} libjs-jquery-ui{a} libjs-sphinxdoc{a} libjs-underscore{a} libk5crypto3{a} libkadm5clnt-mit12{a} libkadm5srv-mit12{a} libkdb5-10t64{a} libkeyutils1{a} libkrb5-3{a} libkrb5-dev{a} libkrb5support0{a} liblapack3{a} liblbfgsb0{a} liblcms2-2{a} libldap-2.5-0{a} libldap-dev{a} liblerc4{a} liblzma-dev{a} libmagic-mgc{a} libmagic1t64{a} libnghttp2-14{a} libnghttp2-dev{a} libnghttp3-9{a} libnghttp3-dev{a} libngtcp2-16{a} libngtcp2-crypto-gnutls-dev{a} libngtcp2-crypto-gnutls8{a} libngtcp2-dev{a} libnsl2{a} libopenjp2-7{a} libp11-kit-dev{a} libpipeline1{a} libpkgconf3{a} libpng16-16t64{a} libpsl-dev{a} libpsl5t64{a} libpython3-all-dev{a} libpython3-dev{a} libpython3-stdlib{a} libpython3.12-dev{a} libpython3.12-minimal{a} libpython3.12-stdlib{a} libpython3.12t64{a} libqhull-r8.0{a} libraqm0{a} libreadline8t64{a} librtmp-dev{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsharpyuv0{a} libssh2-1-dev{a} libssh2-1t64{a} libssl-dev{a} libtasn1-6-dev{a} libtcl8.6{a} libtiff6{a} libtirpc-common{a} libtirpc3t64{a} libtk8.6{a} libtool{a} libuchardet0{a} libunbound8{a} libwebp7{a} libwebpdemux2{a} libwebpmux3{a} libx11-6{a} libx11-data{a} libxau6{a} libxcb1{a} libxdmcp6{a} libxext6{a} libxft2{a} libxml2{a} libxrender1{a} libxslt1.1{a} libxss1{a} libyaml-0-2{a} libzstd-dev{a} m4{a} man-db{a} media-types{a} netbase{a} nettle-dev{a} openssl{a} pkgconf{a} pkgconf-bin{a} po-debconf{a} python-is-python3{a} python-matplotlib-data{a} python3{a} python3-all{a} python3-all-dev{a} python3-appdirs{a} python3-attr{a} python3-autocommand{a} python3-bioframe{a} python3-brotli{a} python3-certifi{a} python3-chardet{a} python3-charset-normalizer{a} python3-click{a} python3-colorama{a} python3-contourpy{a} python3-cycler{a} python3-dateutil{a} python3-decorator{a} python3-dev{a} python3-exceptiongroup{a} python3-fonttools{a} python3-fs{a} python3-idna{a} python3-inflect{a} python3-iniconfig{a} python3-jaraco.context{a} python3-jaraco.functools{a} python3-kiwisolver{a} python3-lxml{a} python3-lz4{a} python3-matplotlib{a} python3-minimal{a} python3-more-itertools{a} python3-mpmath{a} python3-numpy{a} python3-packaging{a} python3-pandas{a} python3-pandas-lib{a} python3-pil{a} python3-pil.imagetk{a} python3-pkg-resources{a} python3-pluggy{a} python3-pyparsing{a} python3-pysam{a} python3-pytest{a} python3-requests{a} python3-scipy{a} python3-setuptools{a} python3-six{a} python3-sympy{a} python3-tk{a} python3-typeguard{a} python3-typing-extensions{a} python3-tz{a} python3-ufolib2{a} python3-urllib3{a} python3-yaml{a} python3-zipp{a} python3.12{a} python3.12-dev{a} python3.12-minimal{a} python3.12-tk{a} python3.13-tk{a} readline-common{a} sensible-utils{a} tk8.6-blt2.5{a} tzdata{a} unicode-data{a} x11-common{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: bzip2-doc curl isympy-common javascript-common krb5-locales libarchive-cpio-perl libglib2.0-data libldap-common libltdl-dev libmail-sendmail-perl libsasl2-modules libtasn1-doc lynx publicsuffix python3-bottleneck python3-bs4 python3-cssselect python3-html5lib python3-jinja2 python3-numexpr python3-odf python3-olefile python3-openpyxl python3-pygments python3-tables shared-mime-info wget xdg-user-dirs 0 packages upgraded, 222 newly installed, 0 to remove and 0 not upgraded. Need to get 141 MB of archives. After unpacking 663 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian trixie/main i386 libpython3.12-minimal i386 3.12.7-3 [814 kB] Get: 2 http://deb.debian.org/debian trixie/main i386 libexpat1 i386 2.6.4-1 [107 kB] Get: 3 http://deb.debian.org/debian trixie/main i386 python3.12-minimal i386 3.12.7-3 [2236 kB] Get: 4 http://deb.debian.org/debian trixie/main i386 python3-minimal i386 3.12.6-1 [26.7 kB] Get: 5 http://deb.debian.org/debian trixie/main i386 media-types all 10.1.0 [26.9 kB] Get: 6 http://deb.debian.org/debian trixie/main i386 netbase all 6.4 [12.8 kB] Get: 7 http://deb.debian.org/debian trixie/main i386 tzdata all 2024b-3 [255 kB] Get: 8 http://deb.debian.org/debian trixie/main i386 libkrb5support0 i386 1.21.3-3 [34.9 kB] Get: 9 http://deb.debian.org/debian trixie/main i386 libcom-err2 i386 1.47.1-1+b1 [23.4 kB] Get: 10 http://deb.debian.org/debian trixie/main i386 libk5crypto3 i386 1.21.3-3 [83.6 kB] Get: 11 http://deb.debian.org/debian trixie/main i386 libkeyutils1 i386 1.6.3-4 [9600 B] Get: 12 http://deb.debian.org/debian trixie/main i386 libkrb5-3 i386 1.21.3-3 [350 kB] Get: 13 http://deb.debian.org/debian trixie/main i386 libgssapi-krb5-2 i386 1.21.3-3 [146 kB] Get: 14 http://deb.debian.org/debian trixie/main i386 libtirpc-common all 1.3.4+ds-1.3 [10.9 kB] Get: 15 http://deb.debian.org/debian trixie/main i386 libtirpc3t64 i386 1.3.4+ds-1.3+b1 [90.5 kB] Get: 16 http://deb.debian.org/debian trixie/main i386 libnsl2 i386 1.3.0-3+b3 [42.7 kB] Get: 17 http://deb.debian.org/debian trixie/main i386 readline-common all 8.2-5 [69.3 kB] Get: 18 http://deb.debian.org/debian trixie/main i386 libreadline8t64 i386 8.2-5 [173 kB] Get: 19 http://deb.debian.org/debian trixie/main i386 libpython3.12-stdlib i386 3.12.7-3 [1964 kB] Get: 20 http://deb.debian.org/debian trixie/main i386 python3.12 i386 3.12.7-3 [671 kB] Get: 21 http://deb.debian.org/debian trixie/main i386 libpython3-stdlib i386 3.12.6-1 [9692 B] Get: 22 http://deb.debian.org/debian trixie/main i386 python3 i386 3.12.6-1 [27.8 kB] Get: 23 http://deb.debian.org/debian trixie/main i386 sensible-utils all 0.0.24 [24.8 kB] Get: 24 http://deb.debian.org/debian trixie/main i386 openssl i386 3.3.2-2 [1387 kB] Get: 25 http://deb.debian.org/debian trixie/main i386 ca-certificates all 20240203 [158 kB] Get: 26 http://deb.debian.org/debian trixie/main i386 libmagic-mgc i386 1:5.45-3+b1 [314 kB] Get: 27 http://deb.debian.org/debian trixie/main i386 libmagic1t64 i386 1:5.45-3+b1 [115 kB] Get: 28 http://deb.debian.org/debian trixie/main i386 file i386 1:5.45-3+b1 [43.2 kB] Get: 29 http://deb.debian.org/debian trixie/main i386 gettext-base i386 0.22.5-2 [201 kB] Get: 30 http://deb.debian.org/debian trixie/main i386 libuchardet0 i386 0.0.8-1+b2 [69.2 kB] Get: 31 http://deb.debian.org/debian trixie/main i386 groff-base i386 1.23.0-5 [1196 kB] Get: 32 http://deb.debian.org/debian trixie/main i386 bsdextrautils i386 2.40.2-11 [95.6 kB] Get: 33 http://deb.debian.org/debian trixie/main i386 libpipeline1 i386 1.5.8-1 [41.2 kB] Get: 34 http://deb.debian.org/debian trixie/main i386 man-db i386 2.13.0-1 [1428 kB] Get: 35 http://deb.debian.org/debian trixie/main i386 m4 i386 1.4.19-4 [293 kB] Get: 36 http://deb.debian.org/debian trixie/main i386 autoconf all 2.72-3 [493 kB] Get: 37 http://deb.debian.org/debian trixie/main i386 autotools-dev all 20220109.1 [51.6 kB] Get: 38 http://deb.debian.org/debian trixie/main i386 automake all 1:1.16.5-1.3 [823 kB] Get: 39 http://deb.debian.org/debian trixie/main i386 autopoint all 0.22.5-2 [723 kB] Get: 40 http://deb.debian.org/debian trixie/main i386 libtcl8.6 i386 8.6.15+dfsg-2 [1103 kB] Get: 41 http://deb.debian.org/debian trixie/main i386 libbrotli1 i386 1.1.0-2+b6 [308 kB] Get: 42 http://deb.debian.org/debian trixie/main i386 libpng16-16t64 i386 1.6.44-2 [288 kB] Get: 43 http://deb.debian.org/debian trixie/main i386 libfreetype6 i386 2.13.3+dfsg-1 [464 kB] Get: 44 http://deb.debian.org/debian trixie/main i386 fonts-dejavu-mono all 2.37-8 [489 kB] Get: 45 http://deb.debian.org/debian trixie/main i386 fonts-dejavu-core all 2.37-8 [840 kB] Get: 46 http://deb.debian.org/debian trixie/main i386 fontconfig-config i386 2.15.0-1.1+b1 [318 kB] Get: 47 http://deb.debian.org/debian trixie/main i386 libfontconfig1 i386 2.15.0-1.1+b1 [402 kB] Get: 48 http://deb.debian.org/debian trixie/main i386 libxau6 i386 1:1.0.11-1 [20.7 kB] Get: 49 http://deb.debian.org/debian trixie/main i386 libxdmcp6 i386 1:1.1.2-3+b2 [24.9 kB] Get: 50 http://deb.debian.org/debian trixie/main i386 libxcb1 i386 1.17.0-2+b1 [148 kB] Get: 51 http://deb.debian.org/debian trixie/main i386 libx11-data all 2:1.8.10-2 [337 kB] Get: 52 http://deb.debian.org/debian trixie/main i386 libx11-6 i386 2:1.8.10-2 [834 kB] Get: 53 http://deb.debian.org/debian trixie/main i386 libxrender1 i386 1:0.9.10-1.1+b2 [28.9 kB] Get: 54 http://deb.debian.org/debian trixie/main i386 libxft2 i386 2.3.6-1+b2 [55.3 kB] Get: 55 http://deb.debian.org/debian trixie/main i386 libxext6 i386 2:1.3.4-1+b2 [52.6 kB] Get: 56 http://deb.debian.org/debian trixie/main i386 x11-common all 1:7.7+23.1 [216 kB] Get: 57 http://deb.debian.org/debian trixie/main i386 libxss1 i386 1:1.2.3-1+b2 [17.3 kB] Get: 58 http://deb.debian.org/debian trixie/main i386 libtk8.6 i386 8.6.15-1 [833 kB] Get: 59 http://deb.debian.org/debian trixie/main i386 tk8.6-blt2.5 i386 2.5.3+dfsg-7 [616 kB] Get: 60 http://deb.debian.org/debian trixie/main i386 blt i386 2.5.3+dfsg-7 [6024 B] Get: 61 http://deb.debian.org/debian trixie/main i386 comerr-dev i386 2.1-1.47.1-1+b1 [55.3 kB] Get: 62 http://deb.debian.org/debian trixie/main i386 cython3 i386 3.0.11+dfsg-1+b1 [3019 kB] Get: 63 http://deb.debian.org/debian trixie/main i386 libdebhelper-perl all 13.20 [89.7 kB] Get: 64 http://deb.debian.org/debian trixie/main i386 libtool all 2.4.7-8 [517 kB] Get: 65 http://deb.debian.org/debian trixie/main i386 dh-autoreconf all 20 [17.1 kB] Get: 66 http://deb.debian.org/debian trixie/main i386 libarchive-zip-perl all 1.68-1 [104 kB] Get: 67 http://deb.debian.org/debian trixie/main i386 libfile-stripnondeterminism-perl all 1.14.0-1 [19.5 kB] Get: 68 http://deb.debian.org/debian trixie/main i386 dh-strip-nondeterminism all 1.14.0-1 [8448 B] Get: 69 http://deb.debian.org/debian trixie/main i386 libelf1t64 i386 0.192-4 [195 kB] Get: 70 http://deb.debian.org/debian trixie/main i386 dwz i386 0.15-1+b1 [116 kB] Get: 71 http://deb.debian.org/debian trixie/main i386 libicu72 i386 72.1-5+b1 [9583 kB] Get: 72 http://deb.debian.org/debian trixie/main i386 libxml2 i386 2.12.7+dfsg+really2.9.14-0.2+b1 [734 kB] Get: 73 http://deb.debian.org/debian trixie/main i386 gettext i386 0.22.5-2 [1631 kB] Get: 74 http://deb.debian.org/debian trixie/main i386 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 75 http://deb.debian.org/debian trixie/main i386 po-debconf all 1.0.21+nmu1 [248 kB] Get: 76 http://deb.debian.org/debian trixie/main i386 debhelper all 13.20 [915 kB] Get: 77 http://deb.debian.org/debian trixie/main i386 python3-autocommand all 2.2.2-3 [13.6 kB] Get: 78 http://deb.debian.org/debian trixie/main i386 python3-more-itertools all 10.5.0-1 [63.8 kB] Get: 79 http://deb.debian.org/debian trixie/main i386 python3-typing-extensions all 4.12.2-2 [73.0 kB] Get: 80 http://deb.debian.org/debian trixie/main i386 python3-typeguard all 4.4.1-1 [37.0 kB] Get: 81 http://deb.debian.org/debian trixie/main i386 python3-inflect all 7.3.1-2 [32.4 kB] Get: 82 http://deb.debian.org/debian trixie/main i386 python3-jaraco.context all 6.0.0-1 [7984 B] Get: 83 http://deb.debian.org/debian trixie/main i386 python3-jaraco.functools all 4.1.0-1 [12.0 kB] Get: 84 http://deb.debian.org/debian trixie/main i386 python3-pkg-resources all 74.1.2-2 [213 kB] Get: 85 http://deb.debian.org/debian trixie/main i386 python3-zipp all 3.21.0-1 [10.6 kB] Get: 86 http://deb.debian.org/debian trixie/main i386 python3-setuptools all 74.1.2-2 [736 kB] Get: 87 http://deb.debian.org/debian trixie/main i386 dh-python all 6.20241024 [109 kB] Get: 88 http://deb.debian.org/debian trixie/main i386 fonts-lyx all 2.4.2.1-1 [190 kB] Get: 89 http://deb.debian.org/debian trixie/main i386 libgssrpc4t64 i386 1.21.3-3 [63.1 kB] Get: 90 http://deb.debian.org/debian trixie/main i386 libkadm5clnt-mit12 i386 1.21.3-3 [43.2 kB] Get: 91 http://deb.debian.org/debian trixie/main i386 libkdb5-10t64 i386 1.21.3-3 [45.1 kB] Get: 92 http://deb.debian.org/debian trixie/main i386 libkadm5srv-mit12 i386 1.21.3-3 [57.0 kB] Get: 93 http://deb.debian.org/debian trixie/main i386 krb5-multidev i386 1.21.3-3 [126 kB] Get: 94 http://deb.debian.org/debian trixie/main i386 libblas3 i386 3.12.0-3+b1 [143 kB] Get: 95 http://deb.debian.org/debian trixie/main i386 libbrotli-dev i386 1.1.0-2+b6 [313 kB] Get: 96 http://deb.debian.org/debian trixie/main i386 libbz2-dev i386 1.0.8-6 [32.1 kB] Get: 97 http://deb.debian.org/debian trixie/main i386 libsasl2-modules-db i386 2.1.28+dfsg1-8 [20.6 kB] Get: 98 http://deb.debian.org/debian trixie/main i386 libsasl2-2 i386 2.1.28+dfsg1-8 [61.0 kB] Get: 99 http://deb.debian.org/debian trixie/main i386 libldap-2.5-0 i386 2.5.18+dfsg-3+b1 [200 kB] Get: 100 http://deb.debian.org/debian trixie/main i386 libnghttp2-14 i386 1.64.0-1 [82.4 kB] Get: 101 http://deb.debian.org/debian trixie/main i386 libnghttp3-9 i386 1.4.0-1+b1 [74.9 kB] Get: 102 http://deb.debian.org/debian trixie/main i386 libngtcp2-16 i386 1.6.0-1 [154 kB] Get: 103 http://deb.debian.org/debian trixie/main i386 libngtcp2-crypto-gnutls8 i386 1.6.0-1 [20.2 kB] Get: 104 http://deb.debian.org/debian trixie/main i386 libpsl5t64 i386 0.21.2-1.1+b1 [57.7 kB] Get: 105 http://deb.debian.org/debian trixie/main i386 librtmp1 i386 2.4+20151223.gitfa8646d.1-2+b5 [62.4 kB] Get: 106 http://deb.debian.org/debian trixie/main i386 libssh2-1t64 i386 1.11.1-1 [256 kB] Get: 107 http://deb.debian.org/debian trixie/main i386 libcurl3t64-gnutls i386 8.11.0-1 [403 kB] Get: 108 http://deb.debian.org/debian trixie/main i386 libevent-2.1-7t64 i386 2.1.12-stable-10+b1 [195 kB] Get: 109 http://deb.debian.org/debian trixie/main i386 libunbound8 i386 1.22.0-1 [632 kB] Get: 110 http://deb.debian.org/debian trixie/main i386 libgnutls-dane0t64 i386 3.8.8-2 [447 kB] Get: 111 http://deb.debian.org/debian trixie/main i386 libgnutls-openssl27t64 i386 3.8.8-2 [447 kB] Get: 112 http://deb.debian.org/debian trixie/main i386 libidn2-dev i386 2.3.7-2+b1 [126 kB] Get: 113 http://deb.debian.org/debian trixie/main i386 libp11-kit-dev i386 0.25.5-2+b1 [208 kB] Get: 114 http://deb.debian.org/debian trixie/main i386 libtasn1-6-dev i386 4.19.0-3+b3 [102 kB] Get: 115 http://deb.debian.org/debian trixie/main i386 libgmpxx4ldbl i386 2:6.3.0+dfsg-2+b2 [330 kB] Get: 116 http://deb.debian.org/debian trixie/main i386 libgmp-dev i386 2:6.3.0+dfsg-2+b2 [661 kB] Get: 117 http://deb.debian.org/debian trixie/main i386 nettle-dev i386 3.10-1+b1 [1334 kB] Get: 118 http://deb.debian.org/debian trixie/main i386 libgnutls28-dev i386 3.8.8-2 [1453 kB] Get: 119 http://deb.debian.org/debian trixie/main i386 libkrb5-dev i386 1.21.3-3 [15.7 kB] Get: 120 http://deb.debian.org/debian trixie/main i386 libldap-dev i386 2.5.18+dfsg-3+b1 [324 kB] Get: 121 http://deb.debian.org/debian trixie/main i386 libpkgconf3 i386 1.8.1-4 [38.4 kB] Get: 122 http://deb.debian.org/debian trixie/main i386 pkgconf-bin i386 1.8.1-4 [30.6 kB] Get: 123 http://deb.debian.org/debian trixie/main i386 pkgconf i386 1.8.1-4 [26.2 kB] Get: 124 http://deb.debian.org/debian trixie/main i386 libnghttp2-dev i386 1.64.0-1 [123 kB] Get: 125 http://deb.debian.org/debian trixie/main i386 libnghttp3-dev i386 1.4.0-1+b1 [99.9 kB] Get: 126 http://deb.debian.org/debian trixie/main i386 libngtcp2-crypto-gnutls-dev i386 1.6.0-1 [24.7 kB] Get: 127 http://deb.debian.org/debian trixie/main i386 libngtcp2-dev i386 1.6.0-1 [206 kB] Get: 128 http://deb.debian.org/debian trixie/main i386 libpsl-dev i386 0.21.2-1.1+b1 [78.4 kB] Get: 129 http://deb.debian.org/debian trixie/main i386 zlib1g-dev i386 1:1.3.dfsg+really1.3.1-1+b1 [916 kB] Get: 130 http://deb.debian.org/debian trixie/main i386 librtmp-dev i386 2.4+20151223.gitfa8646d.1-2+b5 [72.3 kB] Get: 131 http://deb.debian.org/debian trixie/main i386 libssl-dev i386 3.3.2-2 [2790 kB] Get: 132 http://deb.debian.org/debian trixie/main i386 libssh2-1-dev i386 1.11.1-1 [407 kB] Get: 133 http://deb.debian.org/debian trixie/main i386 libzstd-dev i386 1.5.6+dfsg-1+b1 [355 kB] Get: 134 http://deb.debian.org/debian trixie/main i386 libcurl4-gnutls-dev i386 8.11.0-1 [533 kB] Get: 135 http://deb.debian.org/debian trixie/main i386 libdeflate0 i386 1.22-1 [48.1 kB] Get: 136 http://deb.debian.org/debian trixie/main i386 libdeflate-dev i386 1.22-1 [57.2 kB] Get: 137 http://deb.debian.org/debian trixie/main i386 libexpat1-dev i386 2.6.4-1 [165 kB] Get: 138 http://deb.debian.org/debian trixie/main i386 libfribidi0 i386 1.0.15-1 [72.4 kB] Get: 139 http://deb.debian.org/debian trixie/main i386 libgfortran5 i386 14.2.0-8 [735 kB] Get: 140 http://deb.debian.org/debian trixie/main i386 libglib2.0-0t64 i386 2.82.2-2 [1570 kB] Get: 141 http://deb.debian.org/debian trixie/main i386 libgraphite2-3 i386 1.3.14-2+b1 [77.8 kB] Get: 142 http://deb.debian.org/debian trixie/main i386 libharfbuzz0b i386 10.0.1-1 [503 kB] Get: 143 http://deb.debian.org/debian trixie/main i386 libhtscodecs2 i386 1.6.1-1 [70.8 kB] Get: 144 http://deb.debian.org/debian trixie/main i386 libhts3t64 i386 1.20+ds-2 [500 kB] Get: 145 http://deb.debian.org/debian trixie/main i386 liblzma-dev i386 5.6.3-1+b1 [328 kB] Get: 146 http://deb.debian.org/debian trixie/main i386 libhts-dev i386 1.20+ds-2 [1693 kB] Get: 147 http://deb.debian.org/debian trixie/main i386 libimagequant0 i386 2.18.0-1+b2 [36.0 kB] Get: 148 http://deb.debian.org/debian trixie/main i386 libjbig0 i386 2.1-6.1+b2 [32.2 kB] Get: 149 http://deb.debian.org/debian trixie/main i386 libjpeg62-turbo i386 1:2.1.5-3+b1 [171 kB] Get: 150 http://deb.debian.org/debian trixie/main i386 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [326 kB] Get: 151 http://deb.debian.org/debian trixie/main i386 libjs-jquery-ui all 1.13.2+dfsg-1 [250 kB] Get: 152 http://deb.debian.org/debian trixie/main i386 libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [116 kB] Get: 153 http://deb.debian.org/debian trixie/main i386 libjs-sphinxdoc all 7.4.7-4 [158 kB] Get: 154 http://deb.debian.org/debian trixie/main i386 liblapack3 i386 3.12.0-3+b1 [2196 kB] Get: 155 http://deb.debian.org/debian trixie/main i386 liblbfgsb0 i386 3.0+dfsg.4-1+b2 [29.5 kB] Get: 156 http://deb.debian.org/debian trixie/main i386 liblcms2-2 i386 2.16-2 [171 kB] Get: 157 http://deb.debian.org/debian trixie/main i386 liblerc4 i386 4.0.0+ds-5 [191 kB] Get: 158 http://deb.debian.org/debian trixie/main i386 libopenjp2-7 i386 2.5.0-2+b4 [210 kB] Get: 159 http://deb.debian.org/debian trixie/main i386 libpython3.12t64 i386 3.12.7-3 [2170 kB] Get: 160 http://deb.debian.org/debian trixie/main i386 libpython3.12-dev i386 3.12.7-3 [5282 kB] Get: 161 http://deb.debian.org/debian trixie/main i386 libpython3-dev i386 3.12.6-1 [9956 B] Get: 162 http://deb.debian.org/debian trixie/main i386 libpython3-all-dev i386 3.12.6-1 [1068 B] Get: 163 http://deb.debian.org/debian trixie/main i386 libqhull-r8.0 i386 2020.2-6+b2 [259 kB] Get: 164 http://deb.debian.org/debian trixie/main i386 libraqm0 i386 0.10.1-1+b2 [14.8 kB] Get: 165 http://deb.debian.org/debian trixie/main i386 libsharpyuv0 i386 1.4.0-0.1+b1 [113 kB] Get: 166 http://deb.debian.org/debian trixie/main i386 libwebp7 i386 1.4.0-0.1+b1 [322 kB] Get: 167 http://deb.debian.org/debian trixie/main i386 libtiff6 i386 4.5.1+git230720-5 [339 kB] Get: 168 http://deb.debian.org/debian trixie/main i386 libwebpdemux2 i386 1.4.0-0.1+b1 [111 kB] Get: 169 http://deb.debian.org/debian trixie/main i386 libwebpmux3 i386 1.4.0-0.1+b1 [125 kB] Get: 170 http://deb.debian.org/debian trixie/main i386 libxslt1.1 i386 1.1.35-1.1+b1 [243 kB] Get: 171 http://deb.debian.org/debian trixie/main i386 libyaml-0-2 i386 0.2.5-1+b2 [56.0 kB] Get: 172 http://deb.debian.org/debian trixie/main i386 python-is-python3 all 3.11.4-1 [3044 B] Get: 173 http://deb.debian.org/debian trixie/main i386 python-matplotlib-data all 3.8.3-3 [2731 kB] Get: 174 http://deb.debian.org/debian trixie/main i386 python3-all i386 3.12.6-1 [1040 B] Get: 175 http://deb.debian.org/debian trixie/main i386 python3.12-dev i386 3.12.7-3 [505 kB] Get: 176 http://deb.debian.org/debian trixie/main i386 python3-dev i386 3.12.6-1 [26.1 kB] Get: 177 http://deb.debian.org/debian trixie/main i386 python3-all-dev i386 3.12.6-1 [1068 B] Get: 178 http://deb.debian.org/debian trixie/main i386 python3-appdirs all 1.4.4-4 [12.5 kB] Get: 179 http://deb.debian.org/debian trixie/main i386 python3-attr all 23.2.0-2 [65.5 kB] Get: 180 http://deb.debian.org/debian trixie/main i386 python3-dateutil all 2.9.0-3 [79.3 kB] Get: 181 http://deb.debian.org/debian trixie/main i386 python3-pil i386 10.4.0-1+b1 [513 kB] Get: 182 http://deb.debian.org/debian trixie/main i386 python3.12-tk i386 3.12.7-3 [113 kB] Get: 183 http://deb.debian.org/debian trixie/main i386 python3.13-tk i386 3.13.0-2 [104 kB] Get: 184 http://deb.debian.org/debian trixie/main i386 python3-tk i386 3.12.7-1 [9444 B] Get: 185 http://deb.debian.org/debian trixie/main i386 python3-pil.imagetk i386 10.4.0-1+b1 [80.1 kB] Get: 186 http://deb.debian.org/debian trixie/main i386 python3-pyparsing all 3.1.2-1 [146 kB] Get: 187 http://deb.debian.org/debian trixie/main i386 python3-numpy i386 1:1.26.4+ds-12 [4752 kB] Get: 188 http://deb.debian.org/debian trixie/main i386 python3-contourpy i386 1.3.0-2+b1 [270 kB] Get: 189 http://deb.debian.org/debian trixie/main i386 python3-cycler all 0.12.1-1 [9496 B] Get: 190 http://deb.debian.org/debian trixie/main i386 python3-brotli i386 1.1.0-2+b6 [319 kB] Get: 191 http://deb.debian.org/debian trixie/main i386 python3-tz all 2024.1-2 [30.9 kB] Get: 192 http://deb.debian.org/debian trixie/main i386 python3-six all 1.16.0-7 [16.4 kB] Get: 193 http://deb.debian.org/debian trixie/main i386 python3-fs all 2.4.16-4 [95.4 kB] Get: 194 http://deb.debian.org/debian trixie/main i386 python3-lxml i386 5.3.0-1+b1 [1586 kB] Get: 195 http://deb.debian.org/debian trixie/main i386 python3-lz4 i386 4.0.2+dfsg-1+b5 [25.7 kB] Get: 196 http://deb.debian.org/debian trixie/main i386 python3-decorator all 5.1.1-5 [15.1 kB] Get: 197 http://deb.debian.org/debian trixie/main i386 python3-scipy i386 1.13.1-6 [19.6 MB] Get: 198 http://deb.debian.org/debian trixie/main i386 python3-mpmath all 1.3.0-1 [419 kB] Get: 199 http://deb.debian.org/debian trixie/main i386 python3-sympy all 1.13.3-1 [4147 kB] Get: 200 http://deb.debian.org/debian trixie/main i386 python3-ufolib2 all 0.16.1+dfsg1-1 [32.9 kB] Get: 201 http://deb.debian.org/debian trixie/main i386 unicode-data all 15.1.0-1 [8547 kB] Get: 202 http://deb.debian.org/debian trixie/main i386 python3-fonttools i386 4.54.1-4+b1 [1590 kB] Get: 203 http://deb.debian.org/debian trixie/main i386 python3-kiwisolver i386 1.4.7-2+b1 [83.4 kB] Get: 204 http://deb.debian.org/debian trixie/main i386 python3-packaging all 24.1-1 [45.8 kB] Get: 205 http://deb.debian.org/debian trixie/main i386 python3-matplotlib i386 3.8.3-3+b1 [5660 kB] Get: 206 http://deb.debian.org/debian trixie/main i386 python3-pandas-lib i386 2.2.3+dfsg-5+b1 [6860 kB] Get: 207 http://deb.debian.org/debian trixie/main i386 python3-pandas all 2.2.3+dfsg-5 [3096 kB] Get: 208 http://deb.debian.org/debian trixie/main i386 python3-certifi all 2024.8.30+dfsg-1 [9576 B] Get: 209 http://deb.debian.org/debian trixie/main i386 python3-charset-normalizer i386 3.4.0-1+b1 [139 kB] Get: 210 http://deb.debian.org/debian trixie/main i386 python3-idna all 3.8-2 [41.6 kB] Get: 211 http://deb.debian.org/debian trixie/main i386 python3-urllib3 all 2.0.7-2 [111 kB] Get: 212 http://deb.debian.org/debian trixie/main i386 python3-chardet all 5.2.0+dfsg-1 [107 kB] Get: 213 http://deb.debian.org/debian trixie/main i386 python3-requests all 2.32.3+dfsg-1 [71.9 kB] Get: 214 http://deb.debian.org/debian trixie/main i386 python3-bioframe all 0.4.1-1 [71.6 kB] Get: 215 http://deb.debian.org/debian trixie/main i386 python3-colorama all 0.4.6-4 [36.2 kB] Get: 216 http://deb.debian.org/debian trixie/main i386 python3-click all 8.1.7-2 [94.3 kB] Get: 217 http://deb.debian.org/debian trixie/main i386 python3-exceptiongroup all 1.2.2-1 [19.7 kB] Get: 218 http://deb.debian.org/debian trixie/main i386 python3-iniconfig all 1.1.1-2 [6396 B] Get: 219 http://deb.debian.org/debian trixie/main i386 python3-pluggy all 1.5.0-1 [26.9 kB] Get: 220 http://deb.debian.org/debian trixie/main i386 python3-pysam i386 0.22.1+ds-2+b2 [4429 kB] Get: 221 http://deb.debian.org/debian trixie/main i386 python3-pytest all 8.3.3-1 [249 kB] Get: 222 http://deb.debian.org/debian trixie/main i386 python3-yaml i386 6.0.2-1+b1 [173 kB] Fetched 141 MB in 2s (84.3 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libpython3.12-minimal:i386. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19956 files and directories currently installed.) Preparing to unpack .../libpython3.12-minimal_3.12.7-3_i386.deb ... Unpacking libpython3.12-minimal:i386 (3.12.7-3) ... Selecting previously unselected package libexpat1:i386. Preparing to unpack .../libexpat1_2.6.4-1_i386.deb ... Unpacking libexpat1:i386 (2.6.4-1) ... Selecting previously unselected package python3.12-minimal. Preparing to unpack .../python3.12-minimal_3.12.7-3_i386.deb ... Unpacking python3.12-minimal (3.12.7-3) ... Setting up libpython3.12-minimal:i386 (3.12.7-3) ... Setting up libexpat1:i386 (2.6.4-1) ... Setting up python3.12-minimal (3.12.7-3) ... Selecting previously unselected package python3-minimal. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 20276 files and directories currently installed.) Preparing to unpack .../00-python3-minimal_3.12.6-1_i386.deb ... Unpacking python3-minimal (3.12.6-1) ... Selecting previously unselected package media-types. Preparing to unpack .../01-media-types_10.1.0_all.deb ... Unpacking media-types (10.1.0) ... Selecting previously unselected package netbase. Preparing to unpack .../02-netbase_6.4_all.deb ... Unpacking netbase (6.4) ... Selecting previously unselected package tzdata. Preparing to unpack .../03-tzdata_2024b-3_all.deb ... Unpacking tzdata (2024b-3) ... Selecting previously unselected package libkrb5support0:i386. Preparing to unpack .../04-libkrb5support0_1.21.3-3_i386.deb ... Unpacking libkrb5support0:i386 (1.21.3-3) ... Selecting previously unselected package libcom-err2:i386. Preparing to unpack .../05-libcom-err2_1.47.1-1+b1_i386.deb ... Unpacking libcom-err2:i386 (1.47.1-1+b1) ... Selecting previously unselected package libk5crypto3:i386. Preparing to unpack .../06-libk5crypto3_1.21.3-3_i386.deb ... Unpacking libk5crypto3:i386 (1.21.3-3) ... Selecting previously unselected package libkeyutils1:i386. Preparing to unpack .../07-libkeyutils1_1.6.3-4_i386.deb ... Unpacking libkeyutils1:i386 (1.6.3-4) ... Selecting previously unselected package libkrb5-3:i386. Preparing to unpack .../08-libkrb5-3_1.21.3-3_i386.deb ... Unpacking libkrb5-3:i386 (1.21.3-3) ... Selecting previously unselected package libgssapi-krb5-2:i386. Preparing to unpack .../09-libgssapi-krb5-2_1.21.3-3_i386.deb ... Unpacking libgssapi-krb5-2:i386 (1.21.3-3) ... Selecting previously unselected package libtirpc-common. Preparing to unpack .../10-libtirpc-common_1.3.4+ds-1.3_all.deb ... Unpacking libtirpc-common (1.3.4+ds-1.3) ... Selecting previously unselected package libtirpc3t64:i386. Preparing to unpack .../11-libtirpc3t64_1.3.4+ds-1.3+b1_i386.deb ... Adding 'diversion of /lib/i386-linux-gnu/libtirpc.so.3 to /lib/i386-linux-gnu/libtirpc.so.3.usr-is-merged by libtirpc3t64' Adding 'diversion of /lib/i386-linux-gnu/libtirpc.so.3.0.0 to /lib/i386-linux-gnu/libtirpc.so.3.0.0.usr-is-merged by libtirpc3t64' Unpacking libtirpc3t64:i386 (1.3.4+ds-1.3+b1) ... Selecting previously unselected package libnsl2:i386. Preparing to unpack .../12-libnsl2_1.3.0-3+b3_i386.deb ... Unpacking libnsl2:i386 (1.3.0-3+b3) ... Selecting previously unselected package readline-common. Preparing to unpack .../13-readline-common_8.2-5_all.deb ... Unpacking readline-common (8.2-5) ... Selecting previously unselected package libreadline8t64:i386. Preparing to unpack .../14-libreadline8t64_8.2-5_i386.deb ... 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Preparing to unpack .../17-libpython3-stdlib_3.12.6-1_i386.deb ... Unpacking libpython3-stdlib:i386 (3.12.6-1) ... Setting up python3-minimal (3.12.6-1) ... Selecting previously unselected package python3. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 21338 files and directories currently installed.) Preparing to unpack .../000-python3_3.12.6-1_i386.deb ... Unpacking python3 (3.12.6-1) ... Selecting previously unselected package sensible-utils. 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Setting up libtirpc-common (1.3.4+ds-1.3) ... Setting up fonts-lyx (2.4.2.1-1) ... Setting up libdebhelper-perl (13.20) ... Setting up libbrotli1:i386 (1.1.0-2+b6) ... Setting up libmagic1t64:i386 (1:5.45-3+b1) ... Setting up x11-common (1:7.7+23.1) ... invoke-rc.d: could not determine current runlevel Setting up X socket directories... /tmp/.X11-unix /tmp/.ICE-unix. Setting up libpsl5t64:i386 (0.21.2-1.1+b1) ... Setting up libnghttp2-14:i386 (1.64.0-1) ... Setting up libdeflate0:i386 (1.22-1) ... Setting up gettext-base (0.22.5-2) ... Setting up m4 (1.4.19-4) ... Setting up libevent-2.1-7t64:i386 (2.1.12-stable-10+b1) ... Setting up libqhull-r8.0:i386 (2020.2-6+b2) ... Setting up libcom-err2:i386 (1.47.1-1+b1) ... Setting up file (1:5.45-3+b1) ... Setting up libjbig0:i386 (2.1-6.1+b2) ... Setting up libelf1t64:i386 (0.192-4) ... Setting up libpsl-dev:i386 (0.21.2-1.1+b1) ... Setting up libkrb5support0:i386 (1.21.3-3) ... Setting up libsasl2-modules-db:i386 (2.1.28+dfsg1-8) ... Setting up tzdata (2024b-3) ... Current default time zone: 'Etc/UTC' Local time is now: Wed Dec 24 13:15:40 UTC 2025. Universal Time is now: Wed Dec 24 13:15:40 UTC 2025. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up unicode-data (15.1.0-1) ... Setting up autotools-dev (20220109.1) ... Setting up libglib2.0-0t64:i386 (2.82.2-2) ... No schema files found: doing nothing. Setting up libblas3:i386 (3.12.0-3+b1) ... update-alternatives: using /usr/lib/i386-linux-gnu/blas/libblas.so.3 to provide /usr/lib/i386-linux-gnu/libblas.so.3 (libblas.so.3-i386-linux-gnu) in auto mode Setting up libunbound8:i386 (1.22.0-1) ... Setting up libpkgconf3:i386 (1.8.1-4) ... Setting up libgmpxx4ldbl:i386 (2:6.3.0+dfsg-2+b2) ... Setting up libexpat1-dev:i386 (2.6.4-1) ... Setting up libjpeg62-turbo:i386 (1:2.1.5-3+b1) ... Setting up libgnutls-dane0t64:i386 (3.8.8-2) ... Setting up libx11-data (2:1.8.10-2) ... Setting up librtmp1:i386 (2.4+20151223.gitfa8646d.1-2+b5) ... Setting up libfribidi0:i386 (1.0.15-1) ... Setting up libimagequant0:i386 (2.18.0-1+b2) ... Setting up comerr-dev:i386 (2.1-1.47.1-1+b1) ... Setting up fonts-dejavu-mono (2.37-8) ... Setting up libssl-dev:i386 (3.3.2-2) ... Setting up libpng16-16t64:i386 (1.6.44-2) ... Setting up libtcl8.6:i386 (8.6.15+dfsg-2) ... Setting up autopoint (0.22.5-2) ... Setting up fonts-dejavu-core (2.37-8) ... Setting up pkgconf-bin (1.8.1-4) ... Setting up libk5crypto3:i386 (1.21.3-3) ... Setting up libidn2-dev:i386 (2.3.7-2+b1) ... Setting up libsasl2-2:i386 (2.1.28+dfsg1-8) ... Setting up libgfortran5:i386 (14.2.0-8) ... Setting up autoconf (2.72-3) ... Setting up libnghttp3-9:i386 (1.4.0-1+b1) ... Setting up libwebp7:i386 (1.4.0-0.1+b1) ... Setting up libnghttp3-dev:i386 (1.4.0-1+b1) ... Setting up liblzma-dev:i386 (5.6.3-1+b1) ... Setting up zlib1g-dev:i386 (1:1.3.dfsg+really1.3.1-1+b1) ... Setting up dwz (0.15-1+b1) ... Setting up sensible-utils (0.0.24) ... 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Setting up automake (1:1.16.5-1.3) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.14.0-1) ... Setting up liblapack3:i386 (3.12.0-3+b1) ... update-alternatives: using /usr/lib/i386-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/i386-linux-gnu/liblapack.so.3 (liblapack.so.3-i386-linux-gnu) in auto mode Setting up gettext (0.22.5-2) ... Setting up libgmp-dev:i386 (2:6.3.0+dfsg-2+b2) ... Setting up nettle-dev:i386 (3.10-1+b1) ... Setting up libxrender1:i386 (1:0.9.10-1.1+b2) ... Setting up libtool (2.4.7-8) ... Setting up fontconfig-config (2.15.0-1.1+b1) ... Setting up libwebpdemux2:i386 (1.4.0-0.1+b1) ... Setting up libxext6:i386 (2:1.3.4-1+b2) ... Setting up libngtcp2-crypto-gnutls-dev:i386 (1.6.0-1) ... Setting up libngtcp2-dev:i386 (1.6.0-1) ... Setting up libldap-2.5-0:i386 (2.5.18+dfsg-3+b1) ... Setting up pkgconf:i386 (1.8.1-4) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up ca-certificates (20240203) ... Updating certificates in /etc/ssl/certs... 146 added, 0 removed; done. Setting up libjs-jquery-ui (1.13.2+dfsg-1) ... Setting up libfreetype6:i386 (2.13.3+dfsg-1) ... Setting up libldap-dev:i386 (2.5.18+dfsg-3+b1) ... Setting up libgssapi-krb5-2:i386 (1.21.3-3) ... Setting up libssh2-1-dev:i386 (1.11.1-1) ... Setting up libjs-sphinxdoc (7.4.7-4) ... Setting up libreadline8t64:i386 (8.2-5) ... Setting up dh-strip-nondeterminism (1.14.0-1) ... Setting up groff-base (1.23.0-5) ... Setting up libxslt1.1:i386 (1.1.35-1.1+b1) ... Setting up libharfbuzz0b:i386 (10.0.1-1) ... Setting up libxss1:i386 (1:1.2.3-1+b2) ... Setting up libfontconfig1:i386 (2.15.0-1.1+b1) ... Setting up liblbfgsb0:i386 (3.0+dfsg.4-1+b2) ... Setting up libgnutls28-dev:i386 (3.8.8-2) ... Setting up libnghttp2-dev:i386 (1.64.0-1) ... Setting up libxft2:i386 (2.3.6-1+b2) ... Setting up libtirpc3t64:i386 (1.3.4+ds-1.3+b1) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libtk8.6:i386 (8.6.15-1) ... Setting up python3.12-tk (3.12.7-3) ... Setting up libcurl3t64-gnutls:i386 (8.11.0-1) ... Setting up man-db (2.13.0-1) ... Not building database; man-db/auto-update is not 'true'. Setting up python3.13-tk (3.13.0-2) ... Setting up libgssrpc4t64:i386 (1.21.3-3) ... Setting up libraqm0:i386 (0.10.1-1+b2) ... Setting up librtmp-dev:i386 (2.4+20151223.gitfa8646d.1-2+b5) ... Setting up libnsl2:i386 (1.3.0-3+b3) ... Setting up libhts3t64:i386 (1.20+ds-2) ... Setting up libkadm5clnt-mit12:i386 (1.21.3-3) ... Setting up tk8.6-blt2.5 (2.5.3+dfsg-7) ... Setting up libpython3.12-stdlib:i386 (3.12.7-3) ... Setting up libkdb5-10t64:i386 (1.21.3-3) ... Setting up blt (2.5.3+dfsg-7) ... Setting up python3.12 (3.12.7-3) ... Setting up debhelper (13.20) ... Setting up libpython3.12t64:i386 (3.12.7-3) ... Setting up libkadm5srv-mit12:i386 (1.21.3-3) ... Setting up libpython3-stdlib:i386 (3.12.6-1) ... Setting up krb5-multidev:i386 (1.21.3-3) ... Setting up python3 (3.12.6-1) ... Setting up libpython3.12-dev:i386 (3.12.7-3) ... Setting up python3-zipp (3.21.0-1) ... Setting up python3-autocommand (2.2.2-3) ... Setting up python3-tz (2024.1-2) ... Setting up python3-six (1.16.0-7) ... Setting up libkrb5-dev:i386 (1.21.3-3) ... Setting up python3-pil:i386 (10.4.0-1+b1) ... Setting up python3-decorator (5.1.1-5) ... Setting up python3-packaging (24.1-1) ... Setting up python3-pyparsing (3.1.2-1) ... Setting up python3-certifi (2024.8.30+dfsg-1) ... Setting up python3-brotli (1.1.0-2+b6) ... Setting up python3-cycler (0.12.1-1) ... Setting up python3-kiwisolver (1.4.7-2+b1) ... Setting up python3-idna (3.8-2) ... Setting up python3.12-dev (3.12.7-3) ... Setting up cython3 (3.0.11+dfsg-1+b1) ... Setting up python3-typing-extensions (4.12.2-2) ... Setting up python3-urllib3 (2.0.7-2) ... Setting up python3-pluggy (1.5.0-1) ... Setting up python3-lxml:i386 (5.3.0-1+b1) ... Setting up python3-exceptiongroup (1.2.2-1) ... Setting up python3-dateutil (2.9.0-3) ... Setting up python3-mpmath (1.3.0-1) ... Setting up python-is-python3 (3.11.4-1) ... Setting up python3-appdirs (1.4.4-4) ... Setting up python3-more-itertools (10.5.0-1) ... Setting up python3-iniconfig (1.1.1-2) ... Setting up python3-sympy (1.13.3-1) ... Setting up python3-attr (23.2.0-2) ... Setting up python3-pysam (0.22.1+ds-2+b2) ... Setting up libpython3-dev:i386 (3.12.6-1) ... Setting up python3-jaraco.functools (4.1.0-1) ... Setting up python3-jaraco.context (6.0.0-1) ... Setting up python3-colorama (0.4.6-4) ... Setting up python3-lz4 (4.0.2+dfsg-1+b5) ... Setting up python3-charset-normalizer (3.4.0-1+b1) ... Setting up python3-pytest (8.3.3-1) ... Setting up python3-typeguard (4.4.1-1) ... Setting up python3-all (3.12.6-1) ... Setting up python3-yaml (6.0.2-1+b1) ... Setting up python3-tk:i386 (3.12.7-1) ... Setting up python3-click (8.1.7-2) ... Setting up libcurl4-gnutls-dev:i386 (8.11.0-1) ... Setting up python3-inflect (7.3.1-2) ... Setting up python3-pil.imagetk:i386 (10.4.0-1+b1) ... Setting up libpython3-all-dev:i386 (3.12.6-1) ... Setting up python3-dev (3.12.6-1) ... Setting up python3-pkg-resources (74.1.2-2) ... Setting up python3-all-dev (3.12.6-1) ... Setting up python3-setuptools (74.1.2-2) ... Setting up libhts-dev:i386 (1.20+ds-2) ... Setting up python3-fs (2.4.16-4) ... Setting up python3-chardet (5.2.0+dfsg-1) ... Setting up python3-requests (2.32.3+dfsg-1) ... Setting up python3-numpy (1:1.26.4+ds-12) ... Setting up python3-contourpy (1.3.0-2+b1) ... Setting up dh-python (6.20241024) ... Setting up python3-scipy (1.13.1-6) ... Setting up python3-pandas-lib:i386 (2.2.3+dfsg-5+b1) ... Setting up python3-pandas (2.2.3+dfsg-5) ... Setting up python3-fonttools (4.54.1-4+b1) ... Setting up python3-ufolib2 (0.16.1+dfsg1-1) ... Setting up python3-matplotlib (3.8.3-3+b1) ... Setting up python3-bioframe (0.4.1-1) ... Processing triggers for libc-bin (2.40-3) ... Processing triggers for ca-certificates (20240203) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package I: user script /srv/workspace/pbuilder/128672/tmp/hooks/A99_set_merged_usr starting Not re-configuring usrmerge for trixie I: user script /srv/workspace/pbuilder/128672/tmp/hooks/A99_set_merged_usr finished hostname: Name or service not known I: Running cd /build/reproducible-path/pairtools-1.1.0/ && 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 > ../pairtools_1.1.0-1_source.changes dpkg-buildpackage: info: source package pairtools dpkg-buildpackage: info: source version 1.1.0-1 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Alexandre Detiste dpkg-source --before-build . dpkg-buildpackage: info: host architecture i386 debian/rules clean dh clean --with numpy3 --buildsystem=pybuild debian/rules override_dh_auto_clean make[1]: Entering directory '/build/reproducible-path/pairtools-1.1.0' dh_auto_clean I: pybuild base:311: python3.12 setup.py clean /usr/lib/python3/dist-packages/Cython/Compiler/Main.py:381: FutureWarning: Cython directive 'language_level' not set, using '3str' for now (Py3). This has changed from earlier releases! File: /build/reproducible-path/pairtools-1.1.0/pairtools/lib/dedup_cython.pyx tree = Parsing.p_module(s, pxd, full_module_name) /usr/lib/python3/dist-packages/Cython/Compiler/Main.py:381: FutureWarning: Cython directive 'language_level' not set, using '3str' for now (Py3). This has changed from earlier releases! File: /build/reproducible-path/pairtools-1.1.0/pairtools/lib/parse_pysam.pxd tree = Parsing.p_module(s, pxd, full_module_name) /usr/lib/python3/dist-packages/Cython/Compiler/Main.py:381: FutureWarning: Cython directive 'language_level' not set, using '3str' for now (Py3). This has changed from earlier releases! File: /build/reproducible-path/pairtools-1.1.0/pairtools/lib/regions.pyx tree = Parsing.p_module(s, pxd, full_module_name) Compiling /build/reproducible-path/pairtools-1.1.0/pairtools/lib/parse_pysam.pyx because it changed. Compiling /build/reproducible-path/pairtools-1.1.0/pairtools/lib/dedup_cython.pyx because it changed. Compiling /build/reproducible-path/pairtools-1.1.0/pairtools/lib/regions.pyx because it changed. [1/3] Cythonizing /build/reproducible-path/pairtools-1.1.0/pairtools/lib/dedup_cython.pyx [2/3] Cythonizing /build/reproducible-path/pairtools-1.1.0/pairtools/lib/parse_pysam.pyx [3/3] Cythonizing /build/reproducible-path/pairtools-1.1.0/pairtools/lib/regions.pyx running clean removing '/build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build' (and everything under it) 'build/bdist.linux-i686' does not exist -- can't clean it 'build/scripts-3.12' does not exist -- can't clean it rm -f pairtools/lib/*.c pairtools/lib/regions.cpp make[1]: Leaving directory '/build/reproducible-path/pairtools-1.1.0' dh_autoreconf_clean -O--buildsystem=pybuild dh_clean -O--buildsystem=pybuild debian/rules binary dh binary --with numpy3 --buildsystem=pybuild dh_update_autotools_config -O--buildsystem=pybuild dh_autoreconf -O--buildsystem=pybuild dh_auto_configure -O--buildsystem=pybuild I: pybuild base:311: python3.12 setup.py config /usr/lib/python3/dist-packages/Cython/Compiler/Main.py:381: FutureWarning: Cython directive 'language_level' not set, using '3str' for now (Py3). This has changed from earlier releases! File: /build/reproducible-path/pairtools-1.1.0/pairtools/lib/dedup_cython.pyx tree = Parsing.p_module(s, pxd, full_module_name) /usr/lib/python3/dist-packages/Cython/Compiler/Main.py:381: FutureWarning: Cython directive 'language_level' not set, using '3str' for now (Py3). This has changed from earlier releases! File: /build/reproducible-path/pairtools-1.1.0/pairtools/lib/parse_pysam.pxd tree = Parsing.p_module(s, pxd, full_module_name) /usr/lib/python3/dist-packages/Cython/Compiler/Main.py:381: FutureWarning: Cython directive 'language_level' not set, using '3str' for now (Py3). This has changed from earlier releases! File: /build/reproducible-path/pairtools-1.1.0/pairtools/lib/regions.pyx tree = Parsing.p_module(s, pxd, full_module_name) Compiling /build/reproducible-path/pairtools-1.1.0/pairtools/lib/parse_pysam.pyx because it changed. Compiling /build/reproducible-path/pairtools-1.1.0/pairtools/lib/dedup_cython.pyx because it changed. Compiling /build/reproducible-path/pairtools-1.1.0/pairtools/lib/regions.pyx because it changed. [1/3] Cythonizing /build/reproducible-path/pairtools-1.1.0/pairtools/lib/dedup_cython.pyx [2/3] Cythonizing /build/reproducible-path/pairtools-1.1.0/pairtools/lib/parse_pysam.pyx [3/3] Cythonizing /build/reproducible-path/pairtools-1.1.0/pairtools/lib/regions.pyx running config dh_auto_build -O--buildsystem=pybuild I: pybuild base:311: /usr/bin/python3 setup.py build running build running build_py creating /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools copying pairtools/__main__.py -> /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools copying pairtools/__init__.py -> /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools copying pairtools/_logging.py -> /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools creating /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/cli copying pairtools/cli/sort.py -> /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/cli copying pairtools/cli/parse.py -> /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/cli copying pairtools/cli/flip.py -> /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/cli copying pairtools/cli/sample.py -> /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/cli copying pairtools/cli/phase.py -> /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/cli copying pairtools/cli/markasdup.py -> /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/cli copying pairtools/cli/scaling.py -> /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/cli copying pairtools/cli/__init__.py -> /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/cli copying pairtools/cli/stats.py -> /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/cli copying pairtools/cli/restrict.py -> /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/cli copying pairtools/cli/filterbycov.py -> /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/cli copying pairtools/cli/dedup.py -> /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/cli copying pairtools/cli/merge.py -> /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/cli copying pairtools/cli/parse2.py -> /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/cli copying pairtools/cli/select.py -> /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/cli copying pairtools/cli/header.py -> /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/cli copying pairtools/cli/split.py -> /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/cli creating /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/lib copying pairtools/lib/fileio.py -> /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/lib copying pairtools/lib/pairsio.py -> /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/lib copying pairtools/lib/pipes.py -> /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/lib copying pairtools/lib/parse.py -> /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/lib copying pairtools/lib/phase.py -> /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/lib copying pairtools/lib/scaling.py -> /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/lib copying pairtools/lib/__init__.py -> /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/lib copying pairtools/lib/stats.py -> /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/lib copying pairtools/lib/restrict.py -> /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/lib copying pairtools/lib/filterbycov.py -> /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/lib copying pairtools/lib/dedup.py -> /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/lib copying pairtools/lib/pairsam_format.py -> /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/lib copying pairtools/lib/select.py -> /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/lib copying pairtools/lib/headerops.py -> /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/lib running build_ext building 'pairtools.lib.parse_pysam' extension creating build creating build/temp.linux-i686-cpython-312 creating build/temp.linux-i686-cpython-312/build creating build/temp.linux-i686-cpython-312/build/reproducible-path creating build/temp.linux-i686-cpython-312/build/reproducible-path/pairtools-1.1.0 creating build/temp.linux-i686-cpython-312/build/reproducible-path/pairtools-1.1.0/pairtools creating build/temp.linux-i686-cpython-312/build/reproducible-path/pairtools-1.1.0/pairtools/lib i686-linux-gnu-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/pairtools-1.1.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Ipairtools/lib -I/usr/lib/python3/dist-packages/pysam -I/usr/lib/python3/dist-packages/pysam/include/samtools -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/lib/python3/dist-packages/numpy/core/include -c /build/reproducible-path/pairtools-1.1.0/pairtools/lib/parse_pysam.c -o build/temp.linux-i686-cpython-312/build/reproducible-path/pairtools-1.1.0/pairtools/lib/parse_pysam.o i686-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/pairtools-1.1.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-i686-cpython-312/build/reproducible-path/pairtools-1.1.0/pairtools/lib/parse_pysam.o -L/usr/lib/i386-linux-gnu -o /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/lib/parse_pysam.cpython-312-i386-linux-gnu.so /usr/lib/python3/dist-packages/pysam/libctabixproxies.cpython-312-i386-linux-gnu.so /usr/lib/python3/dist-packages/pysam/libcfaidx.cpython-312-i386-linux-gnu.so /usr/lib/python3/dist-packages/pysam/libcsamfile.cpython-312-i386-linux-gnu.so /usr/lib/python3/dist-packages/pysam/libcvcf.cpython-312-i386-linux-gnu.so /usr/lib/python3/dist-packages/pysam/libcbcf.cpython-312-i386-linux-gnu.so /usr/lib/python3/dist-packages/pysam/libctabix.cpython-312-i386-linux-gnu.so building 'pairtools.lib.dedup_cython' extension i686-linux-gnu-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/pairtools-1.1.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/lib/python3/dist-packages/numpy/core/include -c /build/reproducible-path/pairtools-1.1.0/pairtools/lib/dedup_cython.c -o build/temp.linux-i686-cpython-312/build/reproducible-path/pairtools-1.1.0/pairtools/lib/dedup_cython.o In file included from /usr/lib/python3/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1929, from /usr/lib/python3/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, from /usr/lib/python3/dist-packages/numpy/core/include/numpy/arrayobject.h:5, from /build/reproducible-path/pairtools-1.1.0/pairtools/lib/dedup_cython.c:1240: /usr/lib/python3/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 17 | #warning "Using deprecated NumPy API, disable it with " \ | ^~~~~~~ i686-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/pairtools-1.1.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-i686-cpython-312/build/reproducible-path/pairtools-1.1.0/pairtools/lib/dedup_cython.o -L/usr/lib/i386-linux-gnu -o /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/lib/dedup_cython.cpython-312-i386-linux-gnu.so building 'pairtools.lib.regions' extension i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/pairtools-1.1.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/lib/python3/dist-packages/numpy/core/include -c /build/reproducible-path/pairtools-1.1.0/pairtools/lib/regions.cpp -o build/temp.linux-i686-cpython-312/build/reproducible-path/pairtools-1.1.0/pairtools/lib/regions.o In file included from /usr/lib/python3/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1929, from /usr/lib/python3/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, from /usr/lib/python3/dist-packages/numpy/core/include/numpy/arrayobject.h:5, from /build/reproducible-path/pairtools-1.1.0/pairtools/lib/regions.cpp:1302: /usr/lib/python3/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 17 | #warning "Using deprecated NumPy API, disable it with " \ | ^~~~~~~ i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/pairtools-1.1.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -g -O2 -ffile-prefix-map=/build/reproducible-path/pairtools-1.1.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-i686-cpython-312/build/reproducible-path/pairtools-1.1.0/pairtools/lib/regions.o -L/usr/lib/i386-linux-gnu -o /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/lib/regions.cpython-312-i386-linux-gnu.so debian/rules override_dh_auto_test make[1]: Entering directory '/build/reproducible-path/pairtools-1.1.0' dh_auto_test -- --system=custom --test-args="export CURPY={interpreter}; \ cd {build_dir} && {interpreter} -m pytest -v -k 'not test_dedup'" I: pybuild base:311: export CURPY=python3.12; cd /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build && python3.12 -m pytest -v -k 'not test_dedup' ============================= test session starts ============================== platform linux -- Python 3.12.7, pytest-8.3.3, pluggy-1.5.0 -- /usr/bin/python3.12 cachedir: .pytest_cache rootdir: /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build configfile: pytest.ini testpaths: tests plugins: typeguard-4.4.1 collecting ... collected 32 items / 1 deselected / 31 selected tests/test_filterbycov.py::test_mock_pairs PASSED [ 3%] tests/test_flip.py::test_flip PASSED [ 6%] tests/test_header.py::test_generate PASSED [ 9%] tests/test_headerops.py::test_make_standard_header PASSED [ 12%] tests/test_headerops.py::test_samheaderops PASSED [ 16%] tests/test_headerops.py::test_merge_pairheaders PASSED [ 19%] tests/test_headerops.py::test_merge_different_pairheaders PASSED [ 22%] tests/test_headerops.py::test_force_merge_pairheaders PASSED [ 25%] tests/test_headerops.py::test_merge_samheaders PASSED [ 29%] tests/test_headerops.py::test_merge_headers PASSED [ 32%] tests/test_markasdup.py::test_mock_pairsam PASSED [ 35%] tests/test_merge.py::test_mock_pairsam PASSED [ 38%] tests/test_parse.py::test_python_version PASSED [ 41%] tests/test_parse.py::test_mock_pysam PASSED [ 45%] tests/test_parse.py::test_mock_pysam_parse_all PASSED [ 48%] tests/test_parse2.py::test_mock_pysam_parse2_read PASSED [ 51%] tests/test_parse2.py::test_mock_pysam_parse2_pair PASSED [ 54%] tests/test_restrict.py::test_restrict PASSED [ 58%] tests/test_scaling.py::test_scaling PASSED [ 61%] tests/test_select.py::test_preserve PASSED [ 64%] tests/test_select.py::test_equal PASSED [ 67%] tests/test_select.py::test_csv PASSED [ 70%] tests/test_select.py::test_wildcard PASSED [ 74%] tests/test_select.py::test_regex PASSED [ 77%] tests/test_select.py::test_chrom_subset PASSED [ 80%] tests/test_select.py::test_remove_columns PASSED [ 83%] tests/test_sort.py::test_mock_pairsam PASSED [ 87%] tests/test_split.py::test_split PASSED [ 90%] tests/test_stats.py::test_mock_pairsam PASSED [ 93%] tests/test_stats.py::test_merge_stats PASSED [ 96%] tests/test_stats.py::test_find_dist_freq_convergence_distance PASSED [100%] =============================== warnings summary =============================== tests/test_stats.py::test_find_dist_freq_convergence_distance /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/lib/stats.py:466: RuntimeWarning: divide by zero encountered in scalar divide strands: n_cis_pairs / norm_factor tests/test_stats.py::test_find_dist_freq_convergence_distance /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/lib/stats.py:474: RuntimeWarning: divide by zero encountered in scalar divide sum(list(n_cis_pairs_above_convergence_dist.values())) / norm_factor ) tests/test_stats.py::test_find_dist_freq_convergence_distance /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/lib/stats.py:410: RuntimeWarning: invalid value encountered in divide np.abs(dist_freqs_by_strands[strands] - avg_freq_all_strands) tests/test_stats.py::test_find_dist_freq_convergence_distance /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/lib/stats.py:466: RuntimeWarning: invalid value encountered in scalar divide strands: n_cis_pairs / norm_factor tests/test_stats.py::test_find_dist_freq_convergence_distance /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/lib/stats.py:474: RuntimeWarning: invalid value encountered in scalar divide sum(list(n_cis_pairs_above_convergence_dist.values())) / norm_factor ) -- Docs: https://docs.pytest.org/en/stable/how-to/capture-warnings.html ================ 31 passed, 1 deselected, 5 warnings in 35.62s ================= make[1]: Leaving directory '/build/reproducible-path/pairtools-1.1.0' create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=pybuild dh_prep -O--buildsystem=pybuild dh_auto_install -O--buildsystem=pybuild I: pybuild base:311: /usr/bin/python3 setup.py install --root /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools running install /usr/lib/python3/dist-packages/setuptools/_distutils/cmd.py:66: SetuptoolsDeprecationWarning: setup.py install is deprecated. !! ******************************************************************************** Please avoid running ``setup.py`` directly. Instead, use pypa/build, pypa/installer or other standards-based tools. See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details. ******************************************************************************** !! self.initialize_options() running build running build_py running build_ext running install_lib creating /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools creating /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr creating /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib creating /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12 creating /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/mock.merged_chromsizes.stats -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/mock.merged_no_chromsizes.stats -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/mock.no_chromsizes.stats -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages creating /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools creating /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/cli copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/cli/sort.py -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/cli copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/cli/parse.py -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/cli copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/cli/flip.py -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/cli copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/cli/sample.py -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/cli copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/cli/phase.py -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/cli copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/cli/markasdup.py -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/cli copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/cli/scaling.py -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/cli copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/cli/__init__.py -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/cli copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/cli/stats.py -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/cli copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/cli/restrict.py -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/cli copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/cli/filterbycov.py -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/cli copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/cli/dedup.py -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/cli creating /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/cli/__pycache__ copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/cli/__pycache__/select.cpython-312.pyc -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/cli/__pycache__ copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/cli/__pycache__/markasdup.cpython-312.pyc -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/cli/__pycache__ copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/cli/__pycache__/__init__.cpython-312.pyc -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/cli/__pycache__ copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/cli/__pycache__/phase.cpython-312.pyc -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/cli/__pycache__ copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/cli/__pycache__/merge.cpython-312.pyc -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/cli/__pycache__ copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/cli/__pycache__/parse.cpython-312.pyc -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/cli/__pycache__ copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/cli/__pycache__/parse2.cpython-312.pyc -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/cli/__pycache__ copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/cli/__pycache__/flip.cpython-312.pyc -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/cli/__pycache__ copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/cli/__pycache__/scaling.cpython-312.pyc -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/cli/__pycache__ copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/cli/__pycache__/sort.cpython-312.pyc -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/cli/__pycache__ copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/cli/__pycache__/sample.cpython-312.pyc -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/cli/__pycache__ copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/cli/__pycache__/restrict.cpython-312.pyc -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/cli/__pycache__ copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/cli/__pycache__/split.cpython-312.pyc -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/cli/__pycache__ copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/cli/__pycache__/dedup.cpython-312.pyc -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/cli/__pycache__ copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/cli/__pycache__/header.cpython-312.pyc -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/cli/__pycache__ copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/cli/__pycache__/stats.cpython-312.pyc -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/cli/__pycache__ copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/cli/__pycache__/filterbycov.cpython-312.pyc -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/cli/__pycache__ copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/cli/merge.py -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/cli copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/cli/parse2.py -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/cli copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/cli/select.py -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/cli copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/cli/header.py -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/cli copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/cli/split.py -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/cli creating /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/lib copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/lib/fileio.py -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/lib copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/lib/pairsio.py -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/lib copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/lib/pipes.py -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/lib copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/lib/parse.py -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/lib copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/lib/phase.py -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/lib copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/lib/scaling.py -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/lib copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/lib/__init__.py -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/lib copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/lib/stats.py -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/lib copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/lib/restrict.py -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/lib copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/lib/parse_pysam.cpython-312-i386-linux-gnu.so -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/lib copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/lib/filterbycov.py -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/lib copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/lib/dedup.py -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/lib creating /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/lib/__pycache__ copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/lib/__pycache__/pairsio.cpython-312.pyc -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/lib/__pycache__ copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/lib/__pycache__/select.cpython-312.pyc -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/lib/__pycache__ copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/lib/__pycache__/fileio.cpython-312.pyc -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/lib/__pycache__ copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/lib/__pycache__/__init__.cpython-312.pyc -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/lib/__pycache__ copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/lib/__pycache__/phase.cpython-312.pyc -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/lib/__pycache__ copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/lib/__pycache__/headerops.cpython-312.pyc -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/lib/__pycache__ copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/lib/__pycache__/parse.cpython-312.pyc -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/lib/__pycache__ copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/lib/__pycache__/scaling.cpython-312.pyc -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/lib/__pycache__ copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/lib/__pycache__/pairsam_format.cpython-312.pyc -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/lib/__pycache__ copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/lib/__pycache__/pipes.cpython-312.pyc -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/lib/__pycache__ copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/lib/__pycache__/restrict.cpython-312.pyc -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/lib/__pycache__ copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/lib/__pycache__/dedup.cpython-312.pyc -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/lib/__pycache__ copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/lib/__pycache__/stats.cpython-312.pyc -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/lib/__pycache__ copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/lib/__pycache__/filterbycov.cpython-312.pyc -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/lib/__pycache__ copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/lib/pairsam_format.py -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/lib copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/lib/select.py -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/lib copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/lib/dedup_cython.cpython-312-i386-linux-gnu.so -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/lib copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/lib/regions.cpython-312-i386-linux-gnu.so -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/lib copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/lib/headerops.py -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/lib copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/__main__.py -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/__init__.py -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools creating /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/__pycache__ copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/__pycache__/__init__.cpython-312.pyc -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/__pycache__ copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/__pycache__/__main__.cpython-312.pyc -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/__pycache__ copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/__pycache__/_logging.cpython-312.pyc -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/__pycache__ copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/pairtools/_logging.py -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools creating /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/.pytest_cache copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/.pytest_cache/.gitignore -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/.pytest_cache creating /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/.pytest_cache/v creating /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/.pytest_cache/v/cache copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/.pytest_cache/v/cache/stepwise -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/.pytest_cache/v/cache copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/.pytest_cache/v/cache/nodeids -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/.pytest_cache/v/cache copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/.pytest_cache/README.md -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/.pytest_cache copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/.pytest_cache/CACHEDIR.TAG -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/.pytest_cache copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/mock.stats -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages copying /build/reproducible-path/pairtools-1.1.0/.pybuild/cpython3_3.12/build/mock.merged_mixed.stats -> /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages byte-compiling /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/cli/sort.py to sort.cpython-312.pyc byte-compiling /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/cli/parse.py to parse.cpython-312.pyc byte-compiling /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/cli/flip.py to flip.cpython-312.pyc byte-compiling /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/cli/sample.py to sample.cpython-312.pyc byte-compiling /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/cli/phase.py to phase.cpython-312.pyc byte-compiling /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/cli/markasdup.py to markasdup.cpython-312.pyc byte-compiling /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/cli/scaling.py to scaling.cpython-312.pyc byte-compiling /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/cli/__init__.py to __init__.cpython-312.pyc byte-compiling /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/cli/stats.py to stats.cpython-312.pyc byte-compiling /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/cli/restrict.py to restrict.cpython-312.pyc byte-compiling /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/cli/filterbycov.py to filterbycov.cpython-312.pyc byte-compiling /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/cli/dedup.py to dedup.cpython-312.pyc byte-compiling /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/cli/merge.py to merge.cpython-312.pyc byte-compiling /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/cli/parse2.py to parse2.cpython-312.pyc byte-compiling /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/cli/select.py to select.cpython-312.pyc byte-compiling /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/cli/header.py to header.cpython-312.pyc byte-compiling /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/cli/split.py to split.cpython-312.pyc byte-compiling /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/lib/fileio.py to fileio.cpython-312.pyc byte-compiling /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/lib/pairsio.py to pairsio.cpython-312.pyc byte-compiling /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/lib/pipes.py to pipes.cpython-312.pyc byte-compiling /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/lib/parse.py to parse.cpython-312.pyc byte-compiling /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/lib/phase.py to phase.cpython-312.pyc byte-compiling /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/lib/scaling.py to scaling.cpython-312.pyc byte-compiling /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/lib/__init__.py to __init__.cpython-312.pyc byte-compiling /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/lib/stats.py to stats.cpython-312.pyc byte-compiling /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/lib/restrict.py to restrict.cpython-312.pyc byte-compiling /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/lib/filterbycov.py to filterbycov.cpython-312.pyc byte-compiling /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/lib/dedup.py to dedup.cpython-312.pyc byte-compiling /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/lib/pairsam_format.py to pairsam_format.cpython-312.pyc byte-compiling /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/lib/select.py to select.cpython-312.pyc byte-compiling /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/lib/headerops.py to headerops.cpython-312.pyc byte-compiling /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/__main__.py to __main__.cpython-312.pyc byte-compiling /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/__init__.py to __init__.cpython-312.pyc byte-compiling /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools/_logging.py to _logging.cpython-312.pyc running install_egg_info running egg_info creating pairtools.egg-info writing pairtools.egg-info/PKG-INFO writing dependency_links to pairtools.egg-info/dependency_links.txt writing entry points to pairtools.egg-info/entry_points.txt writing requirements to pairtools.egg-info/requires.txt writing top-level names to pairtools.egg-info/top_level.txt writing manifest file 'pairtools.egg-info/SOURCES.txt' reading manifest file 'pairtools.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' no previously-included directories found matching 'doc/_build' no previously-included directories found matching 'doc/_templates' warning: no previously-included files matching '__pycache__/*' found anywhere in distribution warning: no previously-included files matching '*.so' found anywhere in distribution warning: no previously-included files matching '*.pyd' found anywhere in distribution warning: no previously-included files matching '*.pyc' found anywhere in distribution warning: no previously-included files matching '.git*' found anywhere in distribution warning: no previously-included files matching '.deps/*' found anywhere in distribution warning: no previously-included files matching '.DS_Store' found anywhere in distribution adding license file 'LICENSE' writing manifest file 'pairtools.egg-info/SOURCES.txt' Copying pairtools.egg-info to /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/lib/python3.12/dist-packages/pairtools-1.1.0.egg-info Skipping SOURCES.txt running install_scripts Installing pairtools script to /build/reproducible-path/pairtools-1.1.0/debian/python3-pairtools/usr/bin debian/rules execute_after_dh_auto_install make[1]: Entering directory '/build/reproducible-path/pairtools-1.1.0' find debian/ -name '*.stats' -delete make[1]: Leaving directory '/build/reproducible-path/pairtools-1.1.0' dh_install -O--buildsystem=pybuild dh_installdocs -O--buildsystem=pybuild dh_installchangelogs -O--buildsystem=pybuild dh_python3 -O--buildsystem=pybuild dh_installsystemduser -O--buildsystem=pybuild dh_perl -O--buildsystem=pybuild dh_link -O--buildsystem=pybuild dh_strip_nondeterminism -O--buildsystem=pybuild dh_compress -O--buildsystem=pybuild dh_fixperms -O--buildsystem=pybuild dh_missing -O--buildsystem=pybuild dh_dwz -a -O--buildsystem=pybuild dh_strip -a -O--buildsystem=pybuild dh_makeshlibs -a -O--buildsystem=pybuild dh_shlibdeps -a -O--buildsystem=pybuild dh_installdeb -O--buildsystem=pybuild dh_numpy3 -O--buildsystem=pybuild dh_gencontrol -O--buildsystem=pybuild dpkg-gencontrol: warning: Depends field of package python3-pairtools-examples: substitution variable ${shlibs:Depends} used, but is not defined dpkg-gencontrol: warning: package python3-pairtools-examples: substitution variable ${python3:Depends} unused, but is defined dh_md5sums -O--buildsystem=pybuild dh_builddeb -O--buildsystem=pybuild dpkg-deb: building package 'python3-pairtools' in '../python3-pairtools_1.1.0-1_i386.deb'. dpkg-deb: building package 'python3-pairtools-dbgsym' in '../python3-pairtools-dbgsym_1.1.0-1_i386.deb'. dpkg-deb: building package 'python3-pairtools-examples' in '../python3-pairtools-examples_1.1.0-1_i386.deb'. dpkg-genbuildinfo --build=binary -O../pairtools_1.1.0-1_i386.buildinfo dpkg-genchanges --build=binary -O../pairtools_1.1.0-1_i386.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: including full source code in upload I: copying local configuration I: user script /srv/workspace/pbuilder/128672/tmp/hooks/B01_cleanup starting I: user script /srv/workspace/pbuilder/128672/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/128672 and its subdirectories I: Current time: Thu Dec 25 03:17:28 +14 2025 I: pbuilder-time-stamp: 1766582248