I: pbuilder: network access will be disabled during build I: Current time: Mon Jul 19 07:42:25 -12 2021 I: pbuilder-time-stamp: 1626723745 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/bullseye-reproducible-base.tgz] I: copying local configuration I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [htseq_0.13.5-1.dsc] I: copying [./htseq_0.13.5.orig.tar.gz] I: copying [./htseq_0.13.5-1.debian.tar.xz] I: Extracting source gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/tmp/dpkg-verify-sig.ccSS7gu6/trustedkeys.kbx': General error gpgv: Signature made Sun Jan 17 22:26:14 2021 -12 gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./htseq_0.13.5-1.dsc dpkg-source: info: extracting htseq in htseq-0.13.5 dpkg-source: info: unpacking htseq_0.13.5.orig.tar.gz dpkg-source: info: unpacking htseq_0.13.5-1.debian.tar.xz I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/11246/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='armhf' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all,-fixfilepath parallel=5' DISTRIBUTION='' HOME='/root' HOST_ARCH='armhf' IFS=' ' INVOCATION_ID='36c4f3710f6440208fe56020a77160ec' LANG='C' LANGUAGE='en_US:en' LC_ALL='C' MAIL='/var/mail/root' OPTIND='1' PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games' PBCURRENTCOMMANDLINEOPERATION='build' PBUILDER_OPERATION='build' PBUILDER_PKGDATADIR='/usr/share/pbuilder' PBUILDER_PKGLIBDIR='/usr/lib/pbuilder' PBUILDER_SYSCONFDIR='/etc' PPID='11246' PS1='# ' PS2='> ' PS4='+ ' PWD='/' SHELL='/bin/bash' SHLVL='2' SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/tmp.oiJajO78eq/pbuilderrc_92Of --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bullseye-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.oiJajO78eq/b1 --logfile b1/build.log htseq_0.13.5-1.dsc' SUDO_GID='114' SUDO_UID='109' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://10.0.0.15:8000/' I: uname -a Linux ff64a 5.10.0-7-arm64 #1 SMP Debian 5.10.40-1 (2021-05-28) aarch64 GNU/Linux I: ls -l /bin total 3580 -rwxr-xr-x 1 root root 816764 Jun 21 14:26 bash -rwxr-xr-x 3 root root 26052 Jul 20 2020 bunzip2 -rwxr-xr-x 3 root root 26052 Jul 20 2020 bzcat lrwxrwxrwx 1 root root 6 Jul 20 2020 bzcmp -> bzdiff -rwxr-xr-x 1 root root 2225 Jul 20 2020 bzdiff lrwxrwxrwx 1 root root 6 Jul 20 2020 bzegrep -> bzgrep -rwxr-xr-x 1 root root 4877 Sep 4 2019 bzexe lrwxrwxrwx 1 root root 6 Jul 20 2020 bzfgrep -> bzgrep -rwxr-xr-x 1 root root 3775 Jul 20 2020 bzgrep -rwxr-xr-x 3 root root 26052 Jul 20 2020 bzip2 -rwxr-xr-x 1 root root 9636 Jul 20 2020 bzip2recover lrwxrwxrwx 1 root root 6 Jul 20 2020 bzless -> bzmore -rwxr-xr-x 1 root root 1297 Jul 20 2020 bzmore -rwxr-xr-x 1 root root 26668 Sep 22 2020 cat -rwxr-xr-x 1 root root 43104 Sep 22 2020 chgrp -rwxr-xr-x 1 root root 38984 Sep 22 2020 chmod -rwxr-xr-x 1 root root 43112 Sep 22 2020 chown -rwxr-xr-x 1 root root 92616 Sep 22 2020 cp -rwxr-xr-x 1 root root 75524 Dec 10 2020 dash -rwxr-xr-x 1 root root 75880 Sep 22 2020 date -rwxr-xr-x 1 root root 55436 Sep 22 2020 dd -rwxr-xr-x 1 root root 59912 Sep 22 2020 df -rwxr-xr-x 1 root root 96764 Sep 22 2020 dir -rwxr-xr-x 1 root root 55012 Feb 7 02:38 dmesg lrwxrwxrwx 1 root root 8 Nov 6 2019 dnsdomainname -> hostname lrwxrwxrwx 1 root root 8 Nov 6 2019 domainname -> hostname -rwxr-xr-x 1 root root 22508 Sep 22 2020 echo -rwxr-xr-x 1 root root 28 Nov 9 2020 egrep -rwxr-xr-x 1 root root 22496 Sep 22 2020 false -rwxr-xr-x 1 root root 28 Nov 9 2020 fgrep -rwxr-xr-x 1 root root 47492 Feb 7 02:38 findmnt -rwsr-xr-x 1 root root 26076 Feb 26 04:12 fusermount -rwxr-xr-x 1 root root 124508 Nov 9 2020 grep -rwxr-xr-x 2 root root 2346 Mar 2 11:30 gunzip -rwxr-xr-x 1 root root 6376 Mar 2 11:30 gzexe -rwxr-xr-x 1 root root 64212 Mar 2 11:30 gzip -rwxr-xr-x 1 root root 13784 Nov 6 2019 hostname -rwxr-xr-x 1 root root 43180 Sep 22 2020 ln -rwxr-xr-x 1 root root 35068 Feb 7 2020 login -rwxr-xr-x 1 root root 96764 Sep 22 2020 ls -rwxr-xr-x 1 root root 99940 Feb 7 02:38 lsblk -rwxr-xr-x 1 root root 51408 Sep 22 2020 mkdir -rwxr-xr-x 1 root root 43184 Sep 22 2020 mknod -rwxr-xr-x 1 root root 30780 Sep 22 2020 mktemp -rwxr-xr-x 1 root root 34408 Feb 7 02:38 more -rwsr-xr-x 1 root root 34400 Feb 7 02:38 mount -rwxr-xr-x 1 root root 9824 Feb 7 02:38 mountpoint -rwxr-xr-x 1 root root 88524 Sep 22 2020 mv lrwxrwxrwx 1 root root 8 Nov 6 2019 nisdomainname -> hostname lrwxrwxrwx 1 root root 14 Apr 18 03:38 pidof -> /sbin/killall5 -rwxr-xr-x 1 root root 26652 Sep 22 2020 pwd lrwxrwxrwx 1 root root 4 Jun 21 14:26 rbash -> bash -rwxr-xr-x 1 root root 30740 Sep 22 2020 readlink -rwxr-xr-x 1 root root 43104 Sep 22 2020 rm -rwxr-xr-x 1 root root 30732 Sep 22 2020 rmdir -rwxr-xr-x 1 root root 14144 Sep 27 2020 run-parts -rwxr-xr-x 1 root root 76012 Dec 22 2018 sed lrwxrwxrwx 1 root root 4 Jul 17 21:26 sh -> dash -rwxr-xr-x 1 root root 22532 Sep 22 2020 sleep -rwxr-xr-x 1 root root 55360 Sep 22 2020 stty -rwsr-xr-x 1 root root 46704 Feb 7 02:38 su -rwxr-xr-x 1 root root 22532 Sep 22 2020 sync -rwxr-xr-x 1 root root 340872 Feb 16 21:55 tar -rwxr-xr-x 1 root root 9808 Sep 27 2020 tempfile -rwxr-xr-x 1 root root 67696 Sep 22 2020 touch -rwxr-xr-x 1 root root 22496 Sep 22 2020 true -rwxr-xr-x 1 root root 9636 Feb 26 04:12 ulockmgr_server -rwsr-xr-x 1 root root 22108 Feb 7 02:38 umount -rwxr-xr-x 1 root root 22520 Sep 22 2020 uname -rwxr-xr-x 2 root root 2346 Mar 2 11:30 uncompress -rwxr-xr-x 1 root root 96764 Sep 22 2020 vdir -rwxr-xr-x 1 root root 38512 Feb 7 02:38 wdctl lrwxrwxrwx 1 root root 8 Nov 6 2019 ypdomainname -> hostname -rwxr-xr-x 1 root root 1984 Mar 2 11:30 zcat -rwxr-xr-x 1 root root 1678 Mar 2 11:30 zcmp -rwxr-xr-x 1 root root 5880 Mar 2 11:30 zdiff -rwxr-xr-x 1 root root 29 Mar 2 11:30 zegrep -rwxr-xr-x 1 root root 29 Mar 2 11:30 zfgrep -rwxr-xr-x 1 root root 2081 Mar 2 11:30 zforce -rwxr-xr-x 1 root root 7585 Mar 2 11:30 zgrep -rwxr-xr-x 1 root root 2206 Mar 2 11:30 zless -rwxr-xr-x 1 root root 1842 Mar 2 11:30 zmore -rwxr-xr-x 1 root root 4553 Mar 2 11:30 znew I: user script /srv/workspace/pbuilder/11246/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: armhf Maintainer: Debian Pbuilder Team 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: 2to3, debhelper-compat (= 13), dh-python, python3-debian, python3-setuptools, python3-all-dev, python3-numpy, python3-matplotlib, python3-pysam, swig, cython3 dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19398 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 2to3; however: Package 2to3 is not installed. pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on dh-python; however: Package dh-python is not installed. pbuilder-satisfydepends-dummy depends on python3-debian; however: Package python3-debian is not installed. pbuilder-satisfydepends-dummy depends on python3-setuptools; however: Package python3-setuptools is not installed. pbuilder-satisfydepends-dummy depends on python3-all-dev; however: Package python3-all-dev is not installed. pbuilder-satisfydepends-dummy depends on python3-numpy; however: Package python3-numpy is not installed. pbuilder-satisfydepends-dummy depends on python3-matplotlib; however: Package python3-matplotlib is not installed. pbuilder-satisfydepends-dummy depends on python3-pysam; however: Package python3-pysam is not installed. pbuilder-satisfydepends-dummy depends on swig; however: Package swig is not installed. pbuilder-satisfydepends-dummy depends on cython3; however: Package cython3 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: 2to3{a} autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} cython3{a} debhelper{a} dh-autoreconf{a} dh-python{a} dh-strip-nondeterminism{a} dwz{a} file{a} fonts-lyx{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libblas3{a} libbrotli1{a} libbsd0{a} libcurl3-gnutls{a} libdebhelper-perl{a} libdeflate0{a} libelf1{a} libexpat1{a} libexpat1-dev{a} libfile-stripnondeterminism-perl{a} libfreetype6{a} libgfortran5{a} libhts3{a} libicu67{a} libimagequant0{a} libjbig0{a} libjpeg62-turbo{a} libjs-jquery{a} libjs-jquery-ui{a} libjs-sphinxdoc{a} libjs-underscore{a} liblapack3{a} liblcms2-2{a} libldap-2.4-2{a} libmagic-mgc{a} libmagic1{a} libmd0{a} libmpdec3{a} libnghttp2-14{a} libpipeline1{a} libpng16-16{a} libpsl5{a} libpython3-all-dev{a} libpython3-dev{a} libpython3-stdlib{a} libpython3.9{a} libpython3.9-dev{a} libpython3.9-minimal{a} libpython3.9-stdlib{a} libreadline8{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsigsegv2{a} libssh2-1{a} libsub-override-perl{a} libtiff5{a} libtool{a} libuchardet0{a} libwebp6{a} libwebpdemux2{a} libwebpmux3{a} libxau6{a} libxcb1{a} libxdmcp6{a} libxml2{a} m4{a} mailcap{a} man-db{a} media-types{a} mime-support{a} po-debconf{a} python-matplotlib-data{a} python3{a} python3-all{a} python3-all-dev{a} python3-chardet{a} python3-cycler{a} python3-dateutil{a} python3-debian{a} python3-dev{a} python3-distutils{a} python3-kiwisolver{a} python3-lib2to3{a} python3-matplotlib{a} python3-minimal{a} python3-numpy{a} python3-pil{a} python3-pkg-resources{a} python3-pyparsing{a} python3-pysam{a} python3-setuptools{a} python3-six{a} python3.9{a} python3.9-dev{a} python3.9-minimal{a} readline-common{a} sensible-utils{a} swig{a} swig4.0{a} ttf-bitstream-vera{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: ca-certificates curl javascript-common libarchive-cpio-perl libldap-common libltdl-dev libmail-sendmail-perl libsasl2-modules lynx publicsuffix python3-apt python3-olefile python3-tk wget 0 packages upgraded, 111 newly installed, 0 to remove and 0 not upgraded. Need to get 52.3 MB of archives. After unpacking 174 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian bullseye/main armhf bsdextrautils armhf 2.36.1-7 [138 kB] Get: 2 http://deb.debian.org/debian bullseye/main armhf libuchardet0 armhf 0.0.7-1 [65.0 kB] Get: 3 http://deb.debian.org/debian bullseye/main armhf groff-base armhf 1.22.4-6 [847 kB] Get: 4 http://deb.debian.org/debian bullseye/main armhf libpipeline1 armhf 1.5.3-1 [30.1 kB] Get: 5 http://deb.debian.org/debian bullseye/main armhf man-db armhf 2.9.4-2 [1319 kB] Get: 6 http://deb.debian.org/debian bullseye/main armhf libpython3.9-minimal armhf 3.9.2-1 [790 kB] Get: 7 http://deb.debian.org/debian bullseye/main armhf libexpat1 armhf 2.2.10-2 [76.3 kB] Get: 8 http://deb.debian.org/debian bullseye/main armhf python3.9-minimal armhf 3.9.2-1 [1630 kB] Get: 9 http://deb.debian.org/debian bullseye/main armhf python3-minimal armhf 3.9.2-3 [38.2 kB] Get: 10 http://deb.debian.org/debian bullseye/main armhf media-types all 4.0.0 [30.3 kB] Get: 11 http://deb.debian.org/debian bullseye/main armhf mailcap all 3.69 [31.7 kB] Get: 12 http://deb.debian.org/debian bullseye/main armhf mime-support all 3.66 [10.9 kB] Get: 13 http://deb.debian.org/debian bullseye/main armhf libmpdec3 armhf 2.5.1-1 [74.9 kB] Get: 14 http://deb.debian.org/debian bullseye/main armhf readline-common all 8.1-1 [73.7 kB] Get: 15 http://deb.debian.org/debian bullseye/main armhf libreadline8 armhf 8.1-1 [147 kB] Get: 16 http://deb.debian.org/debian bullseye/main armhf libpython3.9-stdlib armhf 3.9.2-1 [1608 kB] Get: 17 http://deb.debian.org/debian bullseye/main armhf python3.9 armhf 3.9.2-1 [466 kB] Get: 18 http://deb.debian.org/debian bullseye/main armhf libpython3-stdlib armhf 3.9.2-3 [21.4 kB] Get: 19 http://deb.debian.org/debian bullseye/main armhf python3 armhf 3.9.2-3 [37.9 kB] Get: 20 http://deb.debian.org/debian bullseye/main armhf sensible-utils all 0.0.14 [14.8 kB] Get: 21 http://deb.debian.org/debian bullseye/main armhf libmagic-mgc armhf 1:5.39-3 [273 kB] Get: 22 http://deb.debian.org/debian bullseye/main armhf libmagic1 armhf 1:5.39-3 [117 kB] Get: 23 http://deb.debian.org/debian bullseye/main armhf file armhf 1:5.39-3 [68.1 kB] Get: 24 http://deb.debian.org/debian bullseye/main armhf gettext-base armhf 0.21-4 [171 kB] Get: 25 http://deb.debian.org/debian bullseye/main armhf python3-lib2to3 all 3.9.2-1 [77.8 kB] Get: 26 http://deb.debian.org/debian bullseye/main armhf 2to3 all 3.9.2-3 [22.4 kB] Get: 27 http://deb.debian.org/debian bullseye/main armhf libsigsegv2 armhf 2.13-1 [34.0 kB] Get: 28 http://deb.debian.org/debian bullseye/main armhf m4 armhf 1.4.18-5 [192 kB] Get: 29 http://deb.debian.org/debian bullseye/main armhf autoconf all 2.69-14 [313 kB] Get: 30 http://deb.debian.org/debian bullseye/main armhf autotools-dev all 20180224.1+nmu1 [77.1 kB] Get: 31 http://deb.debian.org/debian bullseye/main armhf automake all 1:1.16.3-2 [814 kB] Get: 32 http://deb.debian.org/debian bullseye/main armhf autopoint all 0.21-4 [510 kB] Get: 33 http://deb.debian.org/debian bullseye/main armhf cython3 armhf 0.29.21-3+b1 [1250 kB] Get: 34 http://deb.debian.org/debian bullseye/main armhf libdebhelper-perl all 13.3.4 [189 kB] Get: 35 http://deb.debian.org/debian bullseye/main armhf libtool all 2.4.6-15 [513 kB] Get: 36 http://deb.debian.org/debian bullseye/main armhf dh-autoreconf all 20 [17.1 kB] Get: 37 http://deb.debian.org/debian bullseye/main armhf libarchive-zip-perl all 1.68-1 [104 kB] Get: 38 http://deb.debian.org/debian bullseye/main armhf libsub-override-perl all 0.09-2 [10.2 kB] Get: 39 http://deb.debian.org/debian bullseye/main armhf libfile-stripnondeterminism-perl all 1.11.0-1 [25.6 kB] Get: 40 http://deb.debian.org/debian bullseye/main armhf dh-strip-nondeterminism all 1.11.0-1 [15.3 kB] Get: 41 http://deb.debian.org/debian bullseye/main armhf libelf1 armhf 0.183-1 [161 kB] Get: 42 http://deb.debian.org/debian bullseye/main armhf dwz armhf 0.13+20210201-1 [179 kB] Get: 43 http://deb.debian.org/debian bullseye/main armhf libicu67 armhf 67.1-7 [8319 kB] Get: 44 http://deb.debian.org/debian bullseye/main armhf libxml2 armhf 2.9.10+dfsg-6.7 [602 kB] Get: 45 http://deb.debian.org/debian bullseye/main armhf gettext armhf 0.21-4 [1243 kB] Get: 46 http://deb.debian.org/debian bullseye/main armhf intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get: 47 http://deb.debian.org/debian bullseye/main armhf po-debconf all 1.0.21+nmu1 [248 kB] Get: 48 http://deb.debian.org/debian bullseye/main armhf debhelper all 13.3.4 [1049 kB] Get: 49 http://deb.debian.org/debian bullseye/main armhf python3-distutils all 3.9.2-1 [143 kB] Get: 50 http://deb.debian.org/debian bullseye/main armhf dh-python all 4.20201102+nmu1 [99.4 kB] Get: 51 http://deb.debian.org/debian bullseye/main armhf fonts-lyx all 2.3.6-1 [205 kB] Get: 52 http://deb.debian.org/debian bullseye/main armhf libblas3 armhf 3.9.0-3 [109 kB] Get: 53 http://deb.debian.org/debian bullseye/main armhf libbrotli1 armhf 1.0.9-2+b2 [262 kB] Get: 54 http://deb.debian.org/debian bullseye/main armhf libmd0 armhf 1.0.3-3 [27.4 kB] Get: 55 http://deb.debian.org/debian bullseye/main armhf libbsd0 armhf 0.11.3-1 [103 kB] Get: 56 http://deb.debian.org/debian bullseye/main armhf libsasl2-modules-db armhf 2.1.27+dfsg-2.1 [67.6 kB] Get: 57 http://deb.debian.org/debian bullseye/main armhf libsasl2-2 armhf 2.1.27+dfsg-2.1 [99.1 kB] Get: 58 http://deb.debian.org/debian bullseye/main armhf libldap-2.4-2 armhf 2.4.57+dfsg-3 [210 kB] Get: 59 http://deb.debian.org/debian bullseye/main armhf libnghttp2-14 armhf 1.43.0-1 [65.6 kB] Get: 60 http://deb.debian.org/debian bullseye/main armhf libpsl5 armhf 0.21.0-1.2 [56.1 kB] Get: 61 http://deb.debian.org/debian bullseye/main armhf librtmp1 armhf 2.4+20151223.gitfa8646d.1-2+b2 [55.2 kB] Get: 62 http://deb.debian.org/debian bullseye/main armhf libssh2-1 armhf 1.9.0-2 [143 kB] Get: 63 http://deb.debian.org/debian bullseye/main armhf libcurl3-gnutls armhf 7.74.0-1.3+b1 [306 kB] Get: 64 http://deb.debian.org/debian bullseye/main armhf libdeflate0 armhf 1.7-1 [43.1 kB] Get: 65 http://deb.debian.org/debian bullseye/main armhf libexpat1-dev armhf 2.2.10-2 [123 kB] Get: 66 http://deb.debian.org/debian bullseye/main armhf libpng16-16 armhf 1.6.37-3 [277 kB] Get: 67 http://deb.debian.org/debian bullseye/main armhf libfreetype6 armhf 2.10.4+dfsg-1 [357 kB] Get: 68 http://deb.debian.org/debian bullseye/main armhf libgfortran5 armhf 10.2.1-6 [237 kB] Get: 69 http://deb.debian.org/debian bullseye/main armhf libhts3 armhf 1.11-4 [332 kB] Get: 70 http://deb.debian.org/debian bullseye/main armhf libimagequant0 armhf 2.12.2-1.1 [27.2 kB] Get: 71 http://deb.debian.org/debian bullseye/main armhf libjbig0 armhf 2.1-3.1+b2 [28.4 kB] Get: 72 http://deb.debian.org/debian bullseye/main armhf libjpeg62-turbo armhf 1:2.0.6-4 [123 kB] Get: 73 http://deb.debian.org/debian bullseye/main armhf libjs-jquery all 3.5.1+dfsg+~3.5.5-7 [315 kB] Get: 74 http://deb.debian.org/debian bullseye/main armhf libjs-jquery-ui all 1.12.1+dfsg-8 [232 kB] Get: 75 http://deb.debian.org/debian bullseye/main armhf libjs-underscore all 1.9.1~dfsg-3 [100 kB] Get: 76 http://deb.debian.org/debian bullseye/main armhf libjs-sphinxdoc all 3.4.3-2 [127 kB] Get: 77 http://deb.debian.org/debian bullseye/main armhf liblapack3 armhf 3.9.0-3 [1651 kB] Get: 78 http://deb.debian.org/debian bullseye/main armhf liblcms2-2 armhf 2.12~rc1-2 [123 kB] Get: 79 http://deb.debian.org/debian bullseye/main armhf libpython3.9 armhf 3.9.2-1 [1447 kB] Get: 80 http://deb.debian.org/debian bullseye/main armhf libpython3.9-dev armhf 3.9.2-1 [3160 kB] Get: 81 http://deb.debian.org/debian bullseye/main armhf libpython3-dev armhf 3.9.2-3 [21.7 kB] Get: 82 http://deb.debian.org/debian bullseye/main armhf libpython3-all-dev armhf 3.9.2-3 [1068 B] Get: 83 http://deb.debian.org/debian bullseye/main armhf libwebp6 armhf 0.6.1-2.1 [226 kB] Get: 84 http://deb.debian.org/debian bullseye/main armhf libtiff5 armhf 4.2.0-1 [271 kB] Get: 85 http://deb.debian.org/debian bullseye/main armhf libwebpdemux2 armhf 0.6.1-2.1 [86.7 kB] Get: 86 http://deb.debian.org/debian bullseye/main armhf libwebpmux3 armhf 0.6.1-2.1 [94.2 kB] Get: 87 http://deb.debian.org/debian bullseye/main armhf libxau6 armhf 1:1.0.9-1 [19.0 kB] Get: 88 http://deb.debian.org/debian bullseye/main armhf libxdmcp6 armhf 1:1.1.2-3 [24.9 kB] Get: 89 http://deb.debian.org/debian bullseye/main armhf libxcb1 armhf 1.14-3 [136 kB] Get: 90 http://deb.debian.org/debian bullseye/main armhf ttf-bitstream-vera all 1.10-8.1 [223 kB] Get: 91 http://deb.debian.org/debian bullseye/main armhf python-matplotlib-data all 3.3.4-1 [4153 kB] Get: 92 http://deb.debian.org/debian bullseye/main armhf python3-all armhf 3.9.2-3 [1056 B] Get: 93 http://deb.debian.org/debian bullseye/main armhf zlib1g-dev armhf 1:1.2.11.dfsg-2 [185 kB] Get: 94 http://deb.debian.org/debian bullseye/main armhf python3.9-dev armhf 3.9.2-1 [515 kB] Get: 95 http://deb.debian.org/debian bullseye/main armhf python3-dev armhf 3.9.2-3 [24.8 kB] Get: 96 http://deb.debian.org/debian bullseye/main armhf python3-all-dev armhf 3.9.2-3 [1064 B] Get: 97 http://deb.debian.org/debian bullseye/main armhf python3-pkg-resources all 52.0.0-4 [190 kB] Get: 98 http://deb.debian.org/debian bullseye/main armhf python3-chardet all 4.0.0-1 [99.0 kB] Get: 99 http://deb.debian.org/debian bullseye/main armhf python3-six all 1.16.0-1 [17.1 kB] Get: 100 http://deb.debian.org/debian bullseye/main armhf python3-cycler all 0.10.0-3 [8084 B] Get: 101 http://deb.debian.org/debian bullseye/main armhf python3-dateutil all 2.8.1-5 [81.7 kB] Get: 102 http://deb.debian.org/debian bullseye/main armhf python3-debian all 0.1.39 [80.1 kB] Get: 103 http://deb.debian.org/debian bullseye/main armhf python3-kiwisolver armhf 1.3.1-1+b1 [46.7 kB] Get: 104 http://deb.debian.org/debian bullseye/main armhf python3-pyparsing all 2.4.7-1 [109 kB] Get: 105 http://deb.debian.org/debian bullseye/main armhf python3-numpy armhf 1:1.19.5-1 [2981 kB] Get: 106 http://deb.debian.org/debian bullseye/main armhf python3-pil armhf 8.1.2+dfsg-0.2 [414 kB] Get: 107 http://deb.debian.org/debian bullseye/main armhf python3-matplotlib armhf 3.3.4-1 [4111 kB] Get: 108 http://deb.debian.org/debian bullseye/main armhf python3-pysam armhf 0.15.4+ds-3+b2 [1381 kB] Get: 109 http://deb.debian.org/debian bullseye/main armhf python3-setuptools all 52.0.0-4 [366 kB] Get: 110 http://deb.debian.org/debian bullseye/main armhf swig4.0 armhf 4.0.2-1 [1327 kB] Get: 111 http://deb.debian.org/debian bullseye/main armhf swig all 4.0.2-1 [330 kB] Fetched 52.3 MB in 6s (9120 kB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package bsdextrautils. (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 ... 19398 files and directories currently installed.) Preparing to unpack .../0-bsdextrautils_2.36.1-7_armhf.deb ... Unpacking bsdextrautils (2.36.1-7) ... Selecting previously unselected package libuchardet0:armhf. Preparing to unpack .../1-libuchardet0_0.0.7-1_armhf.deb ... Unpacking libuchardet0:armhf (0.0.7-1) ... Selecting previously unselected package groff-base. Preparing to unpack .../2-groff-base_1.22.4-6_armhf.deb ... 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Unpacking python3.9 (3.9.2-1) ... Selecting previously unselected package libpython3-stdlib:armhf. Preparing to unpack .../9-libpython3-stdlib_3.9.2-3_armhf.deb ... Unpacking libpython3-stdlib:armhf (3.9.2-3) ... Setting up python3-minimal (3.9.2-3) ... 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 ... 20710 files and directories currently installed.) Preparing to unpack .../00-python3_3.9.2-3_armhf.deb ... Unpacking python3 (3.9.2-3) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../01-sensible-utils_0.0.14_all.deb ... Unpacking sensible-utils (0.0.14) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../02-libmagic-mgc_1%3a5.39-3_armhf.deb ... Unpacking libmagic-mgc (1:5.39-3) ... Selecting previously unselected package libmagic1:armhf. Preparing to unpack .../03-libmagic1_1%3a5.39-3_armhf.deb ... Unpacking libmagic1:armhf (1:5.39-3) ... Selecting previously unselected package file. Preparing to unpack .../04-file_1%3a5.39-3_armhf.deb ... Unpacking file (1:5.39-3) ... Selecting previously unselected package gettext-base. Preparing to unpack .../05-gettext-base_0.21-4_armhf.deb ... Unpacking gettext-base (0.21-4) ... Selecting previously unselected package python3-lib2to3. Preparing to unpack .../06-python3-lib2to3_3.9.2-1_all.deb ... Unpacking python3-lib2to3 (3.9.2-1) ... Selecting previously unselected package 2to3. 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Unpacking libssh2-1:armhf (1.9.0-2) ... Selecting previously unselected package libcurl3-gnutls:armhf. Preparing to unpack .../44-libcurl3-gnutls_7.74.0-1.3+b1_armhf.deb ... Unpacking libcurl3-gnutls:armhf (7.74.0-1.3+b1) ... Selecting previously unselected package libdeflate0:armhf. Preparing to unpack .../45-libdeflate0_1.7-1_armhf.deb ... Unpacking libdeflate0:armhf (1.7-1) ... Selecting previously unselected package libexpat1-dev:armhf. Preparing to unpack .../46-libexpat1-dev_2.2.10-2_armhf.deb ... Unpacking libexpat1-dev:armhf (2.2.10-2) ... Selecting previously unselected package libpng16-16:armhf. Preparing to unpack .../47-libpng16-16_1.6.37-3_armhf.deb ... Unpacking libpng16-16:armhf (1.6.37-3) ... Selecting previously unselected package libfreetype6:armhf. Preparing to unpack .../48-libfreetype6_2.10.4+dfsg-1_armhf.deb ... Unpacking libfreetype6:armhf (2.10.4+dfsg-1) ... Selecting previously unselected package libgfortran5:armhf. Preparing to unpack .../49-libgfortran5_10.2.1-6_armhf.deb ... Unpacking libgfortran5:armhf (10.2.1-6) ... Selecting previously unselected package libhts3:armhf. Preparing to unpack .../50-libhts3_1.11-4_armhf.deb ... Unpacking libhts3:armhf (1.11-4) ... Selecting previously unselected package libimagequant0:armhf. Preparing to unpack .../51-libimagequant0_2.12.2-1.1_armhf.deb ... Unpacking libimagequant0:armhf (2.12.2-1.1) ... Selecting previously unselected package libjbig0:armhf. Preparing to unpack .../52-libjbig0_2.1-3.1+b2_armhf.deb ... Unpacking libjbig0:armhf (2.1-3.1+b2) ... Selecting previously unselected package libjpeg62-turbo:armhf. Preparing to unpack .../53-libjpeg62-turbo_1%3a2.0.6-4_armhf.deb ... Unpacking libjpeg62-turbo:armhf (1:2.0.6-4) ... Selecting previously unselected package libjs-jquery. Preparing to unpack .../54-libjs-jquery_3.5.1+dfsg+~3.5.5-7_all.deb ... Unpacking libjs-jquery (3.5.1+dfsg+~3.5.5-7) ... 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Selecting previously unselected package libpython3.9-dev:armhf. Preparing to unpack .../61-libpython3.9-dev_3.9.2-1_armhf.deb ... Unpacking libpython3.9-dev:armhf (3.9.2-1) ... Selecting previously unselected package libpython3-dev:armhf. Preparing to unpack .../62-libpython3-dev_3.9.2-3_armhf.deb ... Unpacking libpython3-dev:armhf (3.9.2-3) ... Selecting previously unselected package libpython3-all-dev:armhf. Preparing to unpack .../63-libpython3-all-dev_3.9.2-3_armhf.deb ... Unpacking libpython3-all-dev:armhf (3.9.2-3) ... Selecting previously unselected package libwebp6:armhf. Preparing to unpack .../64-libwebp6_0.6.1-2.1_armhf.deb ... Unpacking libwebp6:armhf (0.6.1-2.1) ... Selecting previously unselected package libtiff5:armhf. Preparing to unpack .../65-libtiff5_4.2.0-1_armhf.deb ... Unpacking libtiff5:armhf (4.2.0-1) ... Selecting previously unselected package libwebpdemux2:armhf. Preparing to unpack .../66-libwebpdemux2_0.6.1-2.1_armhf.deb ... Unpacking libwebpdemux2:armhf (0.6.1-2.1) ... Selecting previously unselected package libwebpmux3:armhf. Preparing to unpack .../67-libwebpmux3_0.6.1-2.1_armhf.deb ... Unpacking libwebpmux3:armhf (0.6.1-2.1) ... Selecting previously unselected package libxau6:armhf. Preparing to unpack .../68-libxau6_1%3a1.0.9-1_armhf.deb ... Unpacking libxau6:armhf (1:1.0.9-1) ... Selecting previously unselected package libxdmcp6:armhf. Preparing to unpack .../69-libxdmcp6_1%3a1.1.2-3_armhf.deb ... Unpacking libxdmcp6:armhf (1:1.1.2-3) ... Selecting previously unselected package libxcb1:armhf. Preparing to unpack .../70-libxcb1_1.14-3_armhf.deb ... Unpacking libxcb1:armhf (1.14-3) ... Selecting previously unselected package ttf-bitstream-vera. Preparing to unpack .../71-ttf-bitstream-vera_1.10-8.1_all.deb ... Unpacking ttf-bitstream-vera (1.10-8.1) ... Selecting previously unselected package python-matplotlib-data. Preparing to unpack .../72-python-matplotlib-data_3.3.4-1_all.deb ... 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Setting up libbrotli1:armhf (1.0.9-2+b2) ... Setting up libnghttp2-14:armhf (1.43.0-1) ... Setting up libmagic1:armhf (1:5.39-3) ... Setting up libdeflate0:armhf (1.7-1) ... Setting up gettext-base (0.21-4) ... Setting up file (1:5.39-3) ... Setting up libjbig0:armhf (2.1-3.1+b2) ... Setting up libsasl2-modules-db:armhf (2.1.27+dfsg-2.1) ... Setting up autotools-dev (20180224.1+nmu1) ... Setting up libblas3:armhf (3.9.0-3) ... update-alternatives: using /usr/lib/arm-linux-gnueabihf/blas/libblas.so.3 to provide /usr/lib/arm-linux-gnueabihf/libblas.so.3 (libblas.so.3-arm-linux-gnueabihf) in auto mode Setting up libexpat1-dev:armhf (2.2.10-2) ... Setting up libjpeg62-turbo:armhf (1:2.0.6-4) ... Setting up librtmp1:armhf (2.4+20151223.gitfa8646d.1-2+b2) ... Setting up libsigsegv2:armhf (2.13-1) ... Setting up libimagequant0:armhf (2.12.2-1.1) ... Setting up libpng16-16:armhf (1.6.37-3) ... Setting up autopoint (0.21-4) ... Setting up libwebp6:armhf (0.6.1-2.1) ... Setting up libsasl2-2:armhf (2.1.27+dfsg-2.1) ... Setting up libgfortran5:armhf (10.2.1-6) ... Setting up zlib1g-dev:armhf (1:1.2.11.dfsg-2) ... Setting up libmd0:armhf (1.0.3-3) ... Setting up sensible-utils (0.0.14) ... Setting up libuchardet0:armhf (0.0.7-1) ... Setting up libmpdec3:armhf (2.5.1-1) ... Setting up libsub-override-perl (0.09-2) ... Setting up libssh2-1:armhf (1.9.0-2) ... Setting up libtiff5:armhf (4.2.0-1) ... Setting up libjs-jquery (3.5.1+dfsg+~3.5.5-7) ... Setting up swig4.0 (4.0.2-1) ... Setting up python-matplotlib-data (3.3.4-1) ... Setting up libwebpmux3:armhf (0.6.1-2.1) ... Setting up libbsd0:armhf (0.11.3-1) ... Setting up mailcap (3.69) ... Setting up libelf1:armhf (0.183-1) ... Setting up readline-common (8.1-1) ... Setting up libxml2:armhf (2.9.10+dfsg-6.7) ... Setting up libjs-underscore (1.9.1~dfsg-3) ... Setting up libfile-stripnondeterminism-perl (1.11.0-1) ... Setting up libxdmcp6:armhf (1:1.1.2-3) ... Setting up liblapack3:armhf (3.9.0-3) ... update-alternatives: using /usr/lib/arm-linux-gnueabihf/lapack/liblapack.so.3 to provide /usr/lib/arm-linux-gnueabihf/liblapack.so.3 (liblapack.so.3-arm-linux-gnueabihf) in auto mode Setting up libxcb1:armhf (1.14-3) ... Setting up gettext (0.21-4) ... Setting up swig (4.0.2-1) ... Setting up mime-support (3.66) ... Setting up libtool (2.4.6-15) ... Setting up libwebpdemux2:armhf (0.6.1-2.1) ... Setting up libreadline8:armhf (8.1-1) ... Setting up libldap-2.4-2:armhf (2.4.57+dfsg-3) ... Setting up m4 (1.4.18-5) ... Setting up libcurl3-gnutls:armhf (7.74.0-1.3+b1) ... Setting up intltool-debian (0.35.0+20060710.5) ... Setting up libjs-jquery-ui (1.12.1+dfsg-8) ... Setting up libfreetype6:armhf (2.10.4+dfsg-1) ... Setting up libjs-sphinxdoc (3.4.3-2) ... Setting up autoconf (2.69-14) ... Setting up dh-strip-nondeterminism (1.11.0-1) ... Setting up dwz (0.13+20210201-1) ... Setting up groff-base (1.22.4-6) ... Setting up libpython3.9-stdlib:armhf (3.9.2-1) ... Setting up libpython3-stdlib:armhf (3.9.2-3) ... Setting up automake (1:1.16.3-2) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libhts3:armhf (1.11-4) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up man-db (2.9.4-2) ... Not building database; man-db/auto-update is not 'true'. Setting up dh-autoreconf (20) ... Setting up libpython3.9:armhf (3.9.2-1) ... Setting up python3.9 (3.9.2-1) ... Setting up libpython3.9-dev:armhf (3.9.2-1) ... Setting up debhelper (13.3.4) ... Setting up python3 (3.9.2-3) ... Setting up python3-six (1.16.0-1) ... Setting up python3-pil:armhf (8.1.2+dfsg-0.2) ... Setting up python3-pyparsing (2.4.7-1) ... Setting up python3-cycler (0.10.0-3) ... Setting up python3-kiwisolver (1.3.1-1+b1) ... Setting up cython3 (0.29.21-3+b1) ... Setting up python3.9-dev (3.9.2-1) ... Setting up python3-dateutil (2.8.1-5) ... Setting up python3-lib2to3 (3.9.2-1) ... Setting up python3-pkg-resources (52.0.0-4) ... Setting up python3-distutils (3.9.2-1) ... Setting up dh-python (4.20201102+nmu1) ... Setting up python3-pysam (0.15.4+ds-3+b2) ... Setting up libpython3-dev:armhf (3.9.2-3) ... Setting up python3-setuptools (52.0.0-4) ... Setting up python3-all (3.9.2-3) ... Setting up 2to3 (3.9.2-3) ... Setting up python3-chardet (4.0.0-1) ... Setting up libpython3-all-dev:armhf (3.9.2-3) ... Setting up python3-debian (0.1.39) ... Setting up python3-dev (3.9.2-3) ... Setting up python3-numpy (1:1.19.5-1) ... Setting up python3-all-dev (3.9.2-3) ... Setting up python3-matplotlib (3.3.4-1) ... Processing triggers for libc-bin (2.31-12) ... Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package I: Running cd /build/htseq-0.13.5/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../htseq_0.13.5-1_source.changes dpkg-buildpackage: info: source package htseq dpkg-buildpackage: info: source version 0.13.5-1 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-source --before-build . dpkg-buildpackage: info: host architecture armhf debian/rules clean dh clean --with python3 --buildsystem=pybuild debian/rules override_dh_auto_clean make[1]: Entering directory '/build/htseq-0.13.5' dh_auto_clean I: pybuild base:232: python3.9 setup.py clean running clean removing '/build/htseq-0.13.5/.pybuild/cpython3_3.9_htseq/build' (and everything under it) 'build/bdist.linux-armhf' does not exist -- can't clean it 'build/scripts-3.9' does not exist -- can't clean it # setup.py creates some symlinks in clean target # remove these links to keep source tree clean for link in 'src' 'HTSeq' 'doc' 'scripts' 'test' ; do \ if [ -L ${link} ] ; then rm ${link} ; fi \ done make[1]: Leaving directory '/build/htseq-0.13.5' dh_autoreconf_clean -O--buildsystem=pybuild dh_clean -O--buildsystem=pybuild debian/rules binary dh binary --with python3 --buildsystem=pybuild dh_update_autotools_config -O--buildsystem=pybuild dh_autoreconf -O--buildsystem=pybuild dh_auto_configure -O--buildsystem=pybuild I: pybuild base:232: python3.9 setup.py config running config dh_auto_build -O--buildsystem=pybuild I: pybuild base:232: /usr/bin/python3 setup.py build running build running build_py running preprocess cythonizing Cython version 0.29.21 SWIGging correcting SWIG for python3 RefactoringTool: Skipping optional fixer: buffer RefactoringTool: Skipping optional fixer: idioms RefactoringTool: Skipping optional fixer: set_literal RefactoringTool: Skipping optional fixer: ws_comma RefactoringTool: Refactored src/StepVector.py RefactoringTool: Files that were modified: RefactoringTool: src/StepVector.py moving swigged .py module done creating /build/htseq-0.13.5/.pybuild/cpython3_3.9_htseq/build/HTSeq copying HTSeq/__init__.py -> /build/htseq-0.13.5/.pybuild/cpython3_3.9_htseq/build/HTSeq copying HTSeq/_HTSeq_internal.py -> /build/htseq-0.13.5/.pybuild/cpython3_3.9_htseq/build/HTSeq copying HTSeq/StepVector.py -> /build/htseq-0.13.5/.pybuild/cpython3_3.9_htseq/build/HTSeq copying HTSeq/_version.py -> /build/htseq-0.13.5/.pybuild/cpython3_3.9_htseq/build/HTSeq creating /build/htseq-0.13.5/.pybuild/cpython3_3.9_htseq/build/HTSeq/scripts copying HTSeq/scripts/__init__.py -> /build/htseq-0.13.5/.pybuild/cpython3_3.9_htseq/build/HTSeq/scripts copying HTSeq/scripts/qa.py -> /build/htseq-0.13.5/.pybuild/cpython3_3.9_htseq/build/HTSeq/scripts copying HTSeq/scripts/count.py -> /build/htseq-0.13.5/.pybuild/cpython3_3.9_htseq/build/HTSeq/scripts copying HTSeq/scripts/count_with_barcodes.py -> /build/htseq-0.13.5/.pybuild/cpython3_3.9_htseq/build/HTSeq/scripts copying HTSeq/utils.py -> /build/htseq-0.13.5/.pybuild/cpython3_3.9_htseq/build/HTSeq copying HTSeq/features.py -> /build/htseq-0.13.5/.pybuild/cpython3_3.9_htseq/build/HTSeq running build_ext building 'HTSeq._HTSeq' extension creating build creating build/temp.linux-armhf-3.9 creating build/temp.linux-armhf-3.9/src arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/build/python3.9-jS0VHk/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -fdebug-prefix-map=/build/htseq-0.13.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include/python3.9 -c src/_HTSeq.c -o build/temp.linux-armhf-3.9/src/_HTSeq.o -w arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -fdebug-prefix-map=/build/htseq-0.13.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-armhf-3.9/src/_HTSeq.o -o /build/htseq-0.13.5/.pybuild/cpython3_3.9_htseq/build/HTSeq/_HTSeq.cpython-39-arm-linux-gnueabihf.so building 'HTSeq._StepVector' extension arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/build/python3.9-jS0VHk/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -fdebug-prefix-map=/build/htseq-0.13.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.9 -c src/StepVector_wrap.cxx -o build/temp.linux-armhf-3.9/src/StepVector_wrap.o -w arm-linux-gnueabihf-g++ -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -fdebug-prefix-map=/build/htseq-0.13.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-armhf-3.9/src/StepVector_wrap.o -o /build/htseq-0.13.5/.pybuild/cpython3_3.9_htseq/build/HTSeq/_StepVector.cpython-39-arm-linux-gnueabihf.so running build_scripts creating build/scripts-3.9 copying and adjusting scripts/htseq-qa -> build/scripts-3.9 copying and adjusting scripts/htseq-count -> build/scripts-3.9 copying and adjusting scripts/htseq-count-barcodes -> build/scripts-3.9 changing mode of build/scripts-3.9/htseq-qa from 644 to 755 changing mode of build/scripts-3.9/htseq-count from 644 to 755 changing mode of build/scripts-3.9/htseq-count-barcodes from 644 to 755 dh_auto_test -O--buildsystem=pybuild I: pybuild base:232: cd /build/htseq-0.13.5/.pybuild/cpython3_3.9_htseq/build; python3.9 -m unittest discover -v ---------------------------------------------------------------------- Ran 0 tests in 0.000s OK create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=pybuild dh_prep -O--buildsystem=pybuild dh_auto_install -O--buildsystem=pybuild I: pybuild base:232: /usr/bin/python3 setup.py install --root /build/htseq-0.13.5/debian/python3-htseq running install running build running build_py running preprocess cythonizing Cython version 0.29.21 SWIGging correcting SWIG for python3 RefactoringTool: Skipping optional fixer: buffer RefactoringTool: Skipping optional fixer: idioms RefactoringTool: Skipping optional fixer: set_literal RefactoringTool: Skipping optional fixer: ws_comma RefactoringTool: Refactored src/StepVector.py RefactoringTool: Files that were modified: RefactoringTool: src/StepVector.py moving swigged .py module done copying HTSeq/StepVector.py -> /build/htseq-0.13.5/.pybuild/cpython3_3.9_htseq/build/HTSeq copying HTSeq/_version.py -> /build/htseq-0.13.5/.pybuild/cpython3_3.9_htseq/build/HTSeq running build_ext building 'HTSeq._HTSeq' extension arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/build/python3.9-jS0VHk/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -fdebug-prefix-map=/build/htseq-0.13.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include/python3.9 -c src/_HTSeq.c -o build/temp.linux-armhf-3.9/src/_HTSeq.o -w arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -fdebug-prefix-map=/build/htseq-0.13.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-armhf-3.9/src/_HTSeq.o -o /build/htseq-0.13.5/.pybuild/cpython3_3.9_htseq/build/HTSeq/_HTSeq.cpython-39-arm-linux-gnueabihf.so building 'HTSeq._StepVector' extension arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/build/python3.9-jS0VHk/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -fdebug-prefix-map=/build/htseq-0.13.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.9 -c src/StepVector_wrap.cxx -o build/temp.linux-armhf-3.9/src/StepVector_wrap.o -w arm-linux-gnueabihf-g++ -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -fdebug-prefix-map=/build/htseq-0.13.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-armhf-3.9/src/StepVector_wrap.o -o /build/htseq-0.13.5/.pybuild/cpython3_3.9_htseq/build/HTSeq/_StepVector.cpython-39-arm-linux-gnueabihf.so running build_scripts running install_lib creating /build/htseq-0.13.5/debian/python3-htseq/usr creating /build/htseq-0.13.5/debian/python3-htseq/usr/lib creating /build/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.9 creating /build/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.9/dist-packages creating /build/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.9/dist-packages/HTSeq copying /build/htseq-0.13.5/.pybuild/cpython3_3.9_htseq/build/HTSeq/_HTSeq_internal.py -> /build/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.9/dist-packages/HTSeq copying /build/htseq-0.13.5/.pybuild/cpython3_3.9_htseq/build/HTSeq/utils.py -> /build/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.9/dist-packages/HTSeq copying /build/htseq-0.13.5/.pybuild/cpython3_3.9_htseq/build/HTSeq/_version.py -> /build/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.9/dist-packages/HTSeq creating /build/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.9/dist-packages/HTSeq/__pycache__ copying /build/htseq-0.13.5/.pybuild/cpython3_3.9_htseq/build/HTSeq/__pycache__/features.cpython-39.pyc -> /build/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.9/dist-packages/HTSeq/__pycache__ copying /build/htseq-0.13.5/.pybuild/cpython3_3.9_htseq/build/HTSeq/__pycache__/__init__.cpython-39.pyc -> /build/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.9/dist-packages/HTSeq/__pycache__ copying /build/htseq-0.13.5/.pybuild/cpython3_3.9_htseq/build/HTSeq/__pycache__/_HTSeq_internal.cpython-39.pyc -> /build/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.9/dist-packages/HTSeq/__pycache__ copying /build/htseq-0.13.5/.pybuild/cpython3_3.9_htseq/build/HTSeq/__pycache__/_version.cpython-39.pyc -> /build/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.9/dist-packages/HTSeq/__pycache__ copying /build/htseq-0.13.5/.pybuild/cpython3_3.9_htseq/build/HTSeq/__pycache__/StepVector.cpython-39.pyc -> /build/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.9/dist-packages/HTSeq/__pycache__ copying /build/htseq-0.13.5/.pybuild/cpython3_3.9_htseq/build/HTSeq/__pycache__/utils.cpython-39.pyc -> /build/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.9/dist-packages/HTSeq/__pycache__ copying /build/htseq-0.13.5/.pybuild/cpython3_3.9_htseq/build/HTSeq/_HTSeq.cpython-39-arm-linux-gnueabihf.so -> /build/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.9/dist-packages/HTSeq copying /build/htseq-0.13.5/.pybuild/cpython3_3.9_htseq/build/HTSeq/__init__.py -> /build/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.9/dist-packages/HTSeq copying /build/htseq-0.13.5/.pybuild/cpython3_3.9_htseq/build/HTSeq/StepVector.py -> /build/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.9/dist-packages/HTSeq copying /build/htseq-0.13.5/.pybuild/cpython3_3.9_htseq/build/HTSeq/_StepVector.cpython-39-arm-linux-gnueabihf.so -> /build/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.9/dist-packages/HTSeq copying /build/htseq-0.13.5/.pybuild/cpython3_3.9_htseq/build/HTSeq/features.py -> /build/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.9/dist-packages/HTSeq creating /build/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.9/dist-packages/HTSeq/scripts creating /build/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.9/dist-packages/HTSeq/scripts/__pycache__ copying /build/htseq-0.13.5/.pybuild/cpython3_3.9_htseq/build/HTSeq/scripts/__pycache__/__init__.cpython-39.pyc -> /build/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.9/dist-packages/HTSeq/scripts/__pycache__ copying /build/htseq-0.13.5/.pybuild/cpython3_3.9_htseq/build/HTSeq/scripts/__init__.py -> /build/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.9/dist-packages/HTSeq/scripts copying /build/htseq-0.13.5/.pybuild/cpython3_3.9_htseq/build/HTSeq/scripts/qa.py -> /build/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.9/dist-packages/HTSeq/scripts copying /build/htseq-0.13.5/.pybuild/cpython3_3.9_htseq/build/HTSeq/scripts/count_with_barcodes.py -> /build/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.9/dist-packages/HTSeq/scripts copying /build/htseq-0.13.5/.pybuild/cpython3_3.9_htseq/build/HTSeq/scripts/count.py -> /build/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.9/dist-packages/HTSeq/scripts byte-compiling /build/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.9/dist-packages/HTSeq/_HTSeq_internal.py to _HTSeq_internal.cpython-39.pyc byte-compiling /build/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.9/dist-packages/HTSeq/utils.py to utils.cpython-39.pyc byte-compiling /build/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.9/dist-packages/HTSeq/_version.py to _version.cpython-39.pyc byte-compiling /build/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.9/dist-packages/HTSeq/__init__.py to __init__.cpython-39.pyc byte-compiling /build/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.9/dist-packages/HTSeq/StepVector.py to StepVector.cpython-39.pyc byte-compiling /build/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.9/dist-packages/HTSeq/features.py to features.cpython-39.pyc byte-compiling /build/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.9/dist-packages/HTSeq/scripts/__init__.py to __init__.cpython-39.pyc byte-compiling /build/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.9/dist-packages/HTSeq/scripts/qa.py to qa.cpython-39.pyc byte-compiling /build/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.9/dist-packages/HTSeq/scripts/count_with_barcodes.py to count_with_barcodes.cpython-39.pyc byte-compiling /build/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.9/dist-packages/HTSeq/scripts/count.py to count.cpython-39.pyc running install_egg_info running egg_info writing HTSeq.egg-info/PKG-INFO writing dependency_links to HTSeq.egg-info/dependency_links.txt writing requirements to HTSeq.egg-info/requires.txt writing top-level names to HTSeq.egg-info/top_level.txt reading manifest file 'HTSeq.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' warning: no previously-included files found matching 'todo.txt' writing manifest file 'HTSeq.egg-info/SOURCES.txt' Copying HTSeq.egg-info to /build/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.9/dist-packages/HTSeq-0.13.5.egg-info Skipping SOURCES.txt running install_scripts creating /build/htseq-0.13.5/debian/python3-htseq/usr/bin copying build/scripts-3.9/htseq-count -> /build/htseq-0.13.5/debian/python3-htseq/usr/bin copying build/scripts-3.9/htseq-count-barcodes -> /build/htseq-0.13.5/debian/python3-htseq/usr/bin copying build/scripts-3.9/htseq-qa -> /build/htseq-0.13.5/debian/python3-htseq/usr/bin changing mode of /build/htseq-0.13.5/debian/python3-htseq/usr/bin/htseq-count to 755 changing mode of /build/htseq-0.13.5/debian/python3-htseq/usr/bin/htseq-count-barcodes to 755 changing mode of /build/htseq-0.13.5/debian/python3-htseq/usr/bin/htseq-qa to 755 dh_installdocs -O--buildsystem=pybuild dh_installchangelogs -O--buildsystem=pybuild dh_installman -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 dwz: debian/python3-htseq/usr/lib/python3/dist-packages/HTSeq/_HTSeq.cpython-39-arm-linux-gnueabihf.so: DWARF compression not beneficial - old size 617861 new size 620873 dwz: debian/python3-htseq/usr/lib/python3/dist-packages/HTSeq/_StepVector.cpython-39-arm-linux-gnueabihf.so: DWARF compression not beneficial - old size 386875 new size 388358 dh_strip -a -O--buildsystem=pybuild dh_makeshlibs -a -O--buildsystem=pybuild dh_shlibdeps -a -O--buildsystem=pybuild dh_installdeb -O--buildsystem=pybuild dh_gencontrol -O--buildsystem=pybuild dpkg-gencontrol: warning: package python3-htseq: substitution variable ${python3:Provides} unused, but is defined dpkg-gencontrol: warning: package python3-htseq: substitution variable ${python3:Versions} unused, but is defined dpkg-gencontrol: warning: package python3-htseq: substitution variable ${python3:Provides} unused, but is defined dpkg-gencontrol: warning: package python3-htseq: substitution variable ${python3:Versions} unused, but is defined dh_md5sums -O--buildsystem=pybuild dh_builddeb -O--buildsystem=pybuild dpkg-deb: building package 'python3-htseq' in '../python3-htseq_0.13.5-1_armhf.deb'. dpkg-deb: building package 'python3-htseq-dbgsym' in '../python3-htseq-dbgsym_0.13.5-1_armhf.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary >../htseq_0.13.5-1_armhf.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: including full source code in upload I: copying local configuration I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env I: removing directory /srv/workspace/pbuilder/11246 and its subdirectories I: Current time: Mon Jul 19 07:50:52 -12 2021 I: pbuilder-time-stamp: 1626724252