Tue Aug 10 13:21:19 UTC 2021 I: starting to build pbalign/buster/amd64 on jenkins on '2021-08-10 13:21' Tue Aug 10 13:21:19 UTC 2021 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/amd64_32/70219/console.log Tue Aug 10 13:21:20 UTC 2021 I: Downloading source for buster/pbalign=0.3.2-1 --2021-08-10 13:21:20-- http://deb.debian.org/debian/pool/main/p/pbalign/pbalign_0.3.2-1.dsc Connecting to 78.137.99.97:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2185 (2.1K) Saving to: ‘pbalign_0.3.2-1.dsc’ 0K .. 100% 185M=0s 2021-08-10 13:21:20 (185 MB/s) - ‘pbalign_0.3.2-1.dsc’ saved [2185/2185] Tue Aug 10 13:21:20 UTC 2021 I: pbalign_0.3.2-1.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA256 Format: 3.0 (quilt) Source: pbalign Binary: pbalign, python-pbalign, pbalign-doc Architecture: all Version: 0.3.2-1 Maintainer: Debian Med Packaging Team Uploaders: Afif Elghraoui Homepage: https://github.com/PacificBiosciences/pbalign Standards-Version: 4.3.0 Vcs-Browser: https://salsa.debian.org/med-team/pbalign Vcs-Git: https://salsa.debian.org/med-team/pbalign.git Testsuite: autopkgtest-pkg-python Build-Depends: debhelper (>= 11~), dh-python, python-all, python-setuptools, python-pbcore, python-pbcommand, python3-sphinx, python-nose Package-List: pbalign deb python optional arch=all pbalign-doc deb doc optional arch=all python-pbalign deb python optional arch=all Checksums-Sha1: ad34cd4667f09b1ce9fc85239e96310b1ecf7e6c 132275 pbalign_0.3.2.orig.tar.gz a306431a76da8f3da1f36911d7a1ebe5b5e4fc20 7940 pbalign_0.3.2-1.debian.tar.xz Checksums-Sha256: 34969cba65fc7cb7b0cfd42d4b9a4e4890bd7ed585e18130127f7956203605e5 132275 pbalign_0.3.2.orig.tar.gz 163ff1d3357bfc5bd77428ab5e34144272b3504f7e4f5e09863e91020246fe67 7940 pbalign_0.3.2-1.debian.tar.xz Files: 6313b44bb3e34adb61d454b58710c04f 132275 pbalign_0.3.2.orig.tar.gz ce1d650108c383951acb381462525fb6 7940 pbalign_0.3.2-1.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJHBAEBCAAxFiEEhMGXeonn7+0+XKYuL9i+2sAg7tEFAlxMU5MTHG1vZWxsZXJA ZGViaWFuLm9yZwAKCRAv2L7awCDu0VowEACm5NjO7vqT7MoyJ5ft8efVKbjCG2YM mWzZ6KzosqR5ceUhZGD7FOw1q1bx4dognDiIuo6E6/fGHwCH5lisAuFPzmpmSdV2 bRiX32WMZKqKeeVU0PD/RnEewCnFWyHVSqsq1GLu9uXrTo1KEB5UK2/uWWwc+atH RmgFUpR+Ioq3DTaXapV0O1IUFke+pjbbXUq4sdS5DQJaLcsf1CIi4AjOCBHVC0s+ z0MEW/e6XIbXirvWIHwYSN6yh6ZCz4I2bjCnj8YN1UPASRkJrLzYr4gjRPteAVlM F1SvwfqeckM3orpJi5hJU4k69K9l3/fFOjhRMlWaVU0qachrCzjZnLJa0WB+Nq2T ZpIhd9f283zoWrYOm9gXsJ3iIislW4fN0O6p/G9ngAKOWZETRuuPeptSNQfHn+Vw iVEMRRl/izdpno0cPqNdvRzwGI49XaQldz9JzwbDUSdCmtLLaaxDqIMR2Z1k/DiB 2lOL1Xziq0OgvCM6b1ZtwdPPs1Gv9G4wy/+RWGn+Ak9HX3uHUIDnpcoIBXUFFa+n AxcGYEHsEQVA7+D7x//eRcawPDSFjfHbWYfUUVP6B082vUZ4cQBy4Nwa3adzE+kq 5FwaXvZPxGVqHMnzJw14qO2zerkNmiAwMPOBY9S8hQ0bNRyaZnG2aRMBQ0JScBWv dlFLHHOSnxBRQQ== =dn/0 -----END PGP SIGNATURE----- Tue Aug 10 13:21:20 UTC 2021 I: Checking whether the package is not for us Tue Aug 10 13:21:20 UTC 2021 I: Starting 1st build on remote node ionos15-amd64.debian.net. Tue Aug 10 13:21:20 UTC 2021 I: Preparing to do remote build '1' on ionos15-amd64.debian.net. Tue Aug 10 13:23:07 UTC 2021 I: Deleting $TMPDIR on ionos15-amd64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Mon Sep 12 07:44:22 -12 2022 I: pbuilder-time-stamp: 1663011862 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/buster-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 [pbalign_0.3.2-1.dsc] I: copying [./pbalign_0.3.2.orig.tar.gz] I: copying [./pbalign_0.3.2-1.debian.tar.xz] I: Extracting source gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/root/.gnupg/trustedkeys.kbx': General error gpgv: Signature made Sat Jan 26 00:33:23 2019 -12 gpgv: using RSA key 84C1977A89E7EFED3E5CA62E2FD8BEDAC020EED1 gpgv: issuer "moeller@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./pbalign_0.3.2-1.dsc dpkg-source: info: extracting pbalign in pbalign-0.3.2 dpkg-source: info: unpacking pbalign_0.3.2.orig.tar.gz dpkg-source: info: unpacking pbalign_0.3.2-1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying find_definitions_from_pbcore.patch I: using fakeroot in build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/53800/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='amd64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=16' DISTRIBUTION='' HOME='/root' HOST_ARCH='amd64' IFS=' ' INVOCATION_ID='9beaaf68955f4d969bbf1a9c75f443e9' 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='53800' 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.NhvDnpEXGb/pbuilderrc_1SLu --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/buster-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.NhvDnpEXGb/b1 --logfile b1/build.log pbalign_0.3.2-1.dsc' SUDO_GID='111' SUDO_UID='106' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://85.184.249.68:3128' I: uname -a Linux ionos15-amd64 5.10.0-0.bpo.8-amd64 #1 SMP Debian 5.10.46-2~bpo10+1 (2021-07-22) x86_64 GNU/Linux I: ls -l /bin total 5116 -rwxr-xr-x 1 root root 1168776 Apr 17 2019 bash -rwxr-xr-x 3 root root 38984 Jul 10 2019 bunzip2 -rwxr-xr-x 3 root root 38984 Jul 10 2019 bzcat lrwxrwxrwx 1 root root 6 Jul 10 2019 bzcmp -> bzdiff -rwxr-xr-x 1 root root 2227 Jul 10 2019 bzdiff lrwxrwxrwx 1 root root 6 Jul 10 2019 bzegrep -> bzgrep -rwxr-xr-x 1 root root 4877 Jun 24 2019 bzexe lrwxrwxrwx 1 root root 6 Jul 10 2019 bzfgrep -> bzgrep -rwxr-xr-x 1 root root 3641 Jul 10 2019 bzgrep -rwxr-xr-x 3 root root 38984 Jul 10 2019 bzip2 -rwxr-xr-x 1 root root 14328 Jul 10 2019 bzip2recover lrwxrwxrwx 1 root root 6 Jul 10 2019 bzless -> bzmore -rwxr-xr-x 1 root root 1297 Jul 10 2019 bzmore -rwxr-xr-x 1 root root 43744 Feb 28 2019 cat -rwxr-xr-x 1 root root 64320 Feb 28 2019 chgrp -rwxr-xr-x 1 root root 64288 Feb 28 2019 chmod -rwxr-xr-x 1 root root 72512 Feb 28 2019 chown -rwxr-xr-x 1 root root 146880 Feb 28 2019 cp -rwxr-xr-x 1 root root 121464 Jan 17 2019 dash -rwxr-xr-x 1 root root 109408 Feb 28 2019 date -rwxr-xr-x 1 root root 76712 Feb 28 2019 dd -rwxr-xr-x 1 root root 93744 Feb 28 2019 df -rwxr-xr-x 1 root root 138856 Feb 28 2019 dir -rwxr-xr-x 1 root root 84288 Jan 9 2019 dmesg lrwxrwxrwx 1 root root 8 Sep 26 2018 dnsdomainname -> hostname lrwxrwxrwx 1 root root 8 Sep 26 2018 domainname -> hostname -rwxr-xr-x 1 root root 39520 Feb 28 2019 echo -rwxr-xr-x 1 root root 28 Jan 7 2019 egrep -rwxr-xr-x 1 root root 35424 Feb 28 2019 false -rwxr-xr-x 1 root root 28 Jan 7 2019 fgrep -rwxr-xr-x 1 root root 68880 Jan 9 2019 findmnt -rwsr-xr-x 1 root root 34896 Apr 22 2020 fusermount -rwxr-xr-x 1 root root 198976 Jan 7 2019 grep -rwxr-xr-x 2 root root 2345 Jan 5 2019 gunzip -rwxr-xr-x 1 root root 6375 Jan 5 2019 gzexe -rwxr-xr-x 1 root root 98048 Jan 5 2019 gzip -rwxr-xr-x 1 root root 26696 Sep 26 2018 hostname -rwxr-xr-x 1 root root 68552 Feb 28 2019 ln -rwxr-xr-x 1 root root 56760 Jul 26 2018 login -rwxr-xr-x 1 root root 138856 Feb 28 2019 ls -rwxr-xr-x 1 root root 108624 Jan 9 2019 lsblk -rwxr-xr-x 1 root root 89088 Feb 28 2019 mkdir -rwxr-xr-x 1 root root 68544 Feb 28 2019 mknod -rwxr-xr-x 1 root root 43808 Feb 28 2019 mktemp -rwxr-xr-x 1 root root 43008 Jan 9 2019 more -rwsr-xr-x 1 root root 51280 Jan 9 2019 mount -rwxr-xr-x 1 root root 14408 Jan 9 2019 mountpoint -rwxr-xr-x 1 root root 138728 Feb 28 2019 mv lrwxrwxrwx 1 root root 8 Sep 26 2018 nisdomainname -> hostname lrwxrwxrwx 1 root root 14 Feb 14 2019 pidof -> /sbin/killall5 -rwxr-xr-x 1 root root 39616 Feb 28 2019 pwd lrwxrwxrwx 1 root root 4 Apr 17 2019 rbash -> bash -rwxr-xr-x 1 root root 47776 Feb 28 2019 readlink -rwxr-xr-x 1 root root 68416 Feb 28 2019 rm -rwxr-xr-x 1 root root 47776 Feb 28 2019 rmdir -rwxr-xr-x 1 root root 23312 Jan 21 2019 run-parts -rwxr-xr-x 1 root root 122224 Dec 22 2018 sed lrwxrwxrwx 1 root root 4 Sep 9 02:47 sh -> dash -rwxr-xr-x 1 root root 39552 Feb 28 2019 sleep -rwxr-xr-x 1 root root 80672 Feb 28 2019 stty -rwsr-xr-x 1 root root 63568 Jan 9 2019 su -rwxr-xr-x 1 root root 35488 Feb 28 2019 sync -rwxr-xr-x 1 root root 445560 Apr 23 2019 tar -rwxr-xr-x 1 root root 14440 Jan 21 2019 tempfile -rwxr-xr-x 1 root root 97152 Feb 28 2019 touch -rwxr-xr-x 1 root root 35424 Feb 28 2019 true -rwxr-xr-x 1 root root 14328 Apr 22 2020 ulockmgr_server -rwsr-xr-x 1 root root 34888 Jan 9 2019 umount -rwxr-xr-x 1 root root 39584 Feb 28 2019 uname -rwxr-xr-x 2 root root 2345 Jan 5 2019 uncompress -rwxr-xr-x 1 root root 138856 Feb 28 2019 vdir -rwxr-xr-x 1 root root 34896 Jan 9 2019 wdctl -rwxr-xr-x 1 root root 946 Jan 21 2019 which lrwxrwxrwx 1 root root 8 Sep 26 2018 ypdomainname -> hostname -rwxr-xr-x 1 root root 1983 Jan 5 2019 zcat -rwxr-xr-x 1 root root 1677 Jan 5 2019 zcmp -rwxr-xr-x 1 root root 5879 Jan 5 2019 zdiff -rwxr-xr-x 1 root root 29 Jan 5 2019 zegrep -rwxr-xr-x 1 root root 29 Jan 5 2019 zfgrep -rwxr-xr-x 1 root root 2080 Jan 5 2019 zforce -rwxr-xr-x 1 root root 7584 Jan 5 2019 zgrep -rwxr-xr-x 1 root root 2205 Jan 5 2019 zless -rwxr-xr-x 1 root root 1841 Jan 5 2019 zmore -rwxr-xr-x 1 root root 4552 Jan 5 2019 znew I: user script /srv/workspace/pbuilder/53800/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: amd64 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper (>= 11~), dh-python, python-all, python-setuptools, python-pbcore, python-pbcommand, python3-sphinx, python-nose dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19195 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 (>= 11~); however: Package debhelper is not installed. pbuilder-satisfydepends-dummy depends on dh-python; however: Package dh-python is not installed. pbuilder-satisfydepends-dummy depends on python-all; however: Package python-all is not installed. pbuilder-satisfydepends-dummy depends on python-setuptools; however: Package python-setuptools is not installed. pbuilder-satisfydepends-dummy depends on python-pbcore; however: Package python-pbcore is not installed. pbuilder-satisfydepends-dummy depends on python-pbcommand; however: Package python-pbcommand is not installed. pbuilder-satisfydepends-dummy depends on python3-sphinx; however: Package python3-sphinx is not installed. pbuilder-satisfydepends-dummy depends on python-nose; however: Package python-nose 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} bsdmainutils{a} ca-certificates{a} debhelper{a} dh-autoreconf{a} dh-python{a} dh-strip-nondeterminism{a} docutils-common{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libblas3{a} libbsd0{a} libcroco3{a} libcurl3-gnutls{a} libdeflate0{a} libelf1{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libgfortran5{a} libglib2.0-0{a} libgssapi-krb5-2{a} libhts2{a} libicu63{a} libjs-jquery{a} libjs-sphinxdoc{a} libjs-underscore{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} liblapack3{a} libldap-2.4-2{a} libldap-common{a} libmagic-mgc{a} libmagic1{a} libmpdec2{a} libncurses6{a} libnghttp2-14{a} libpipeline1{a} libpsl5{a} libpython-stdlib{a} libpython2-stdlib{a} libpython2.7-minimal{a} libpython2.7-stdlib{a} libpython3-stdlib{a} libpython3.7-minimal{a} libpython3.7-stdlib{a} libreadline7{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsigsegv2{a} libssh2-1{a} libssl1.1{a} libtool{a} libuchardet0{a} libxml2{a} m4{a} man-db{a} mime-support{a} openssl{a} po-debconf{a} python{a} python-all{a} python-avro{a} python-babel-localedata{a} python-certifi{a} python-chardet{a} python-idna{a} python-iso8601{a} python-minimal{a} python-nose{a} python-numpy{a} python-pbcommand{a} python-pbcore{a} python-pkg-resources{a} python-pysam{a} python-requests{a} python-setuptools{a} python-six{a} python-tz{a} python-urllib3{a} python2{a} python2-minimal{a} python2.7{a} python2.7-minimal{a} python3{a} python3-alabaster{a} python3-babel{a} python3-certifi{a} python3-chardet{a} python3-distutils{a} python3-docutils{a} python3-idna{a} python3-imagesize{a} python3-jinja2{a} python3-lib2to3{a} python3-markupsafe{a} python3-minimal{a} python3-packaging{a} python3-pkg-resources{a} python3-pygments{a} python3-pyparsing{a} python3-requests{a} python3-roman{a} python3-six{a} python3-sphinx{a} python3-tz{a} python3-urllib3{a} python3.7{a} python3.7-minimal{a} readline-common{a} sensible-utils{a} sgml-base{a} sphinx-common{a} xml-core{a} The following packages are RECOMMENDED but will NOT be installed: curl javascript-common krb5-locales libarchive-cpio-perl libglib2.0-data libgpm2 libltdl-dev libmail-sendmail-perl libpaper-utils libsasl2-modules lynx publicsuffix python-cryptography python-h5py python-ipaddress python-openssl python3-pil shared-mime-info wget xdg-user-dirs 0 packages upgraded, 124 newly installed, 0 to remove and 0 not upgraded. Need to get 58.0 MB of archives. After unpacking 215 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian buster/main amd64 libbsd0 amd64 0.9.1-2+deb10u1 [99.5 kB] Get: 2 http://deb.debian.org/debian buster/main amd64 bsdmainutils amd64 11.1.2+b1 [191 kB] Get: 3 http://deb.debian.org/debian buster/main amd64 libuchardet0 amd64 0.0.6-3 [64.9 kB] Get: 4 http://deb.debian.org/debian buster/main amd64 groff-base amd64 1.22.4-3+deb10u1 [916 kB] Get: 5 http://deb.debian.org/debian buster/main amd64 libpipeline1 amd64 1.5.1-2 [31.2 kB] Get: 6 http://deb.debian.org/debian buster/main amd64 man-db amd64 2.8.5-2 [1274 kB] Get: 7 http://deb.debian.org/debian buster/main amd64 libpython2.7-minimal amd64 2.7.16-2+deb10u1 [395 kB] Get: 8 http://deb.debian.org/debian buster/main amd64 python2.7-minimal amd64 2.7.16-2+deb10u1 [1369 kB] Get: 9 http://deb.debian.org/debian buster/main amd64 python2-minimal amd64 2.7.16-1 [41.4 kB] Get: 10 http://deb.debian.org/debian buster/main amd64 python-minimal amd64 2.7.16-1 [21.0 kB] Get: 11 http://deb.debian.org/debian buster/main amd64 libssl1.1 amd64 1.1.1d-0+deb10u6 [1539 kB] Get: 12 http://deb.debian.org/debian buster/main amd64 mime-support all 3.62 [37.2 kB] Get: 13 http://deb.debian.org/debian buster/main amd64 libexpat1 amd64 2.2.6-2+deb10u1 [106 kB] Get: 14 http://deb.debian.org/debian buster/main amd64 readline-common all 7.0-5 [70.6 kB] Get: 15 http://deb.debian.org/debian buster/main amd64 libreadline7 amd64 7.0-5 [151 kB] Get: 16 http://deb.debian.org/debian buster/main amd64 libpython2.7-stdlib amd64 2.7.16-2+deb10u1 [1912 kB] Get: 17 http://deb.debian.org/debian buster/main amd64 python2.7 amd64 2.7.16-2+deb10u1 [305 kB] Get: 18 http://deb.debian.org/debian buster/main amd64 libpython2-stdlib amd64 2.7.16-1 [20.8 kB] Get: 19 http://deb.debian.org/debian buster/main amd64 libpython-stdlib amd64 2.7.16-1 [20.8 kB] Get: 20 http://deb.debian.org/debian buster/main amd64 python2 amd64 2.7.16-1 [41.6 kB] Get: 21 http://deb.debian.org/debian buster/main amd64 python amd64 2.7.16-1 [22.8 kB] Get: 22 http://deb.debian.org/debian buster/main amd64 libpython3.7-minimal amd64 3.7.3-2+deb10u3 [589 kB] Get: 23 http://deb.debian.org/debian buster/main amd64 python3.7-minimal amd64 3.7.3-2+deb10u3 [1737 kB] Get: 24 http://deb.debian.org/debian buster/main amd64 python3-minimal amd64 3.7.3-1 [36.6 kB] Get: 25 http://deb.debian.org/debian buster/main amd64 libmpdec2 amd64 2.4.2-2 [87.2 kB] Get: 26 http://deb.debian.org/debian buster/main amd64 libpython3.7-stdlib amd64 3.7.3-2+deb10u3 [1734 kB] Get: 27 http://deb.debian.org/debian buster/main amd64 python3.7 amd64 3.7.3-2+deb10u3 [330 kB] Get: 28 http://deb.debian.org/debian buster/main amd64 libpython3-stdlib amd64 3.7.3-1 [20.0 kB] Get: 29 http://deb.debian.org/debian buster/main amd64 python3 amd64 3.7.3-1 [61.5 kB] Get: 30 http://deb.debian.org/debian buster/main amd64 sgml-base all 1.29 [14.8 kB] Get: 31 http://deb.debian.org/debian buster/main amd64 sensible-utils all 0.0.12 [15.8 kB] Get: 32 http://deb.debian.org/debian buster/main amd64 libmagic-mgc amd64 1:5.35-4+deb10u2 [242 kB] Get: 33 http://deb.debian.org/debian buster/main amd64 libmagic1 amd64 1:5.35-4+deb10u2 [118 kB] Get: 34 http://deb.debian.org/debian buster/main amd64 file amd64 1:5.35-4+deb10u2 [66.4 kB] Get: 35 http://deb.debian.org/debian buster/main amd64 gettext-base amd64 0.19.8.1-9 [123 kB] Get: 36 http://deb.debian.org/debian buster/main amd64 libsigsegv2 amd64 2.12-2 [32.8 kB] Get: 37 http://deb.debian.org/debian buster/main amd64 m4 amd64 1.4.18-2 [203 kB] Get: 38 http://deb.debian.org/debian buster/main amd64 autoconf all 2.69-11 [341 kB] Get: 39 http://deb.debian.org/debian buster/main amd64 autotools-dev all 20180224.1 [77.0 kB] Get: 40 http://deb.debian.org/debian buster/main amd64 automake all 1:1.16.1-4 [771 kB] Get: 41 http://deb.debian.org/debian buster/main amd64 autopoint all 0.19.8.1-9 [434 kB] Get: 42 http://deb.debian.org/debian buster/main amd64 openssl amd64 1.1.1d-0+deb10u6 [844 kB] Get: 43 http://deb.debian.org/debian buster/main amd64 ca-certificates all 20200601~deb10u2 [166 kB] Get: 44 http://deb.debian.org/debian buster/main amd64 libtool all 2.4.6-9 [547 kB] Get: 45 http://deb.debian.org/debian buster/main amd64 dh-autoreconf all 19 [16.9 kB] Get: 46 http://deb.debian.org/debian buster/main amd64 libarchive-zip-perl all 1.64-1 [96.8 kB] Get: 47 http://deb.debian.org/debian buster/main amd64 libfile-stripnondeterminism-perl all 1.1.2-1 [19.8 kB] Get: 48 http://deb.debian.org/debian buster/main amd64 dh-strip-nondeterminism all 1.1.2-1 [13.0 kB] Get: 49 http://deb.debian.org/debian buster/main amd64 libelf1 amd64 0.176-1.1 [161 kB] Get: 50 http://deb.debian.org/debian buster/main amd64 dwz amd64 0.12-3 [78.0 kB] Get: 51 http://deb.debian.org/debian buster/main amd64 libglib2.0-0 amd64 2.58.3-2+deb10u3 [1259 kB] Get: 52 http://deb.debian.org/debian buster/main amd64 libicu63 amd64 63.1-6+deb10u1 [8300 kB] Get: 53 http://deb.debian.org/debian buster/main amd64 libxml2 amd64 2.9.4+dfsg1-7+deb10u2 [689 kB] Get: 54 http://deb.debian.org/debian buster/main amd64 libcroco3 amd64 0.6.12-3 [145 kB] Get: 55 http://deb.debian.org/debian buster/main amd64 libncurses6 amd64 6.1+20181013-2+deb10u2 [102 kB] Get: 56 http://deb.debian.org/debian buster/main amd64 gettext amd64 0.19.8.1-9 [1303 kB] Get: 57 http://deb.debian.org/debian buster/main amd64 intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get: 58 http://deb.debian.org/debian buster/main amd64 po-debconf all 1.0.21 [248 kB] Get: 59 http://deb.debian.org/debian buster/main amd64 debhelper all 12.1.1 [1016 kB] Get: 60 http://deb.debian.org/debian buster/main amd64 python3-lib2to3 all 3.7.3-1 [76.7 kB] Get: 61 http://deb.debian.org/debian buster/main amd64 python3-distutils all 3.7.3-1 [142 kB] Get: 62 http://deb.debian.org/debian buster/main amd64 dh-python all 3.20190308 [99.3 kB] Get: 63 http://deb.debian.org/debian buster/main amd64 xml-core all 0.18+nmu1 [23.8 kB] Get: 64 http://deb.debian.org/debian buster/main amd64 docutils-common all 0.14+dfsg-4 [167 kB] Get: 65 http://deb.debian.org/debian buster/main amd64 libgfortran5 amd64 8.3.0-6 [581 kB] Get: 66 http://deb.debian.org/debian buster/main amd64 libblas3 amd64 3.8.0-2 [148 kB] Get: 67 http://deb.debian.org/debian buster/main amd64 libkeyutils1 amd64 1.6-6 [15.0 kB] Get: 68 http://deb.debian.org/debian buster/main amd64 libkrb5support0 amd64 1.17-3+deb10u1 [65.8 kB] Get: 69 http://deb.debian.org/debian buster/main amd64 libk5crypto3 amd64 1.17-3+deb10u1 [122 kB] Get: 70 http://deb.debian.org/debian buster/main amd64 libkrb5-3 amd64 1.17-3+deb10u1 [369 kB] Get: 71 http://deb.debian.org/debian buster/main amd64 libgssapi-krb5-2 amd64 1.17-3+deb10u1 [158 kB] Get: 72 http://deb.debian.org/debian buster/main amd64 libsasl2-modules-db amd64 2.1.27+dfsg-1+deb10u1 [69.1 kB] Get: 73 http://deb.debian.org/debian buster/main amd64 libsasl2-2 amd64 2.1.27+dfsg-1+deb10u1 [106 kB] Get: 74 http://deb.debian.org/debian buster/main amd64 libldap-common all 2.4.47+dfsg-3+deb10u6 [90.0 kB] Get: 75 http://deb.debian.org/debian buster/main amd64 libldap-2.4-2 amd64 2.4.47+dfsg-3+deb10u6 [224 kB] Get: 76 http://deb.debian.org/debian buster/main amd64 libnghttp2-14 amd64 1.36.0-2+deb10u1 [85.0 kB] Get: 77 http://deb.debian.org/debian buster/main amd64 libpsl5 amd64 0.20.2-2 [53.7 kB] Get: 78 http://deb.debian.org/debian buster/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2 [60.5 kB] Get: 79 http://deb.debian.org/debian buster/main amd64 libssh2-1 amd64 1.8.0-2.1 [140 kB] Get: 80 http://deb.debian.org/debian buster/main amd64 libcurl3-gnutls amd64 7.64.0-4+deb10u2 [330 kB] Get: 81 http://deb.debian.org/debian buster/main amd64 libdeflate0 amd64 1.2-1 [55.4 kB] Get: 82 http://deb.debian.org/debian buster/main amd64 libhts2 amd64 1.9-11 [305 kB] Get: 83 http://deb.debian.org/debian buster/main amd64 libjs-jquery all 3.3.1~dfsg-3+deb10u1 [332 kB] Get: 84 http://deb.debian.org/debian buster/main amd64 libjs-underscore all 1.9.1~dfsg-1+deb10u1 [100.0 kB] Get: 85 http://deb.debian.org/debian buster/main amd64 libjs-sphinxdoc all 1.8.4-1 [95.9 kB] Get: 86 http://deb.debian.org/debian buster/main amd64 liblapack3 amd64 3.8.0-2 [2110 kB] Get: 87 http://deb.debian.org/debian buster/main amd64 python-all amd64 2.7.16-1 [1044 B] Get: 88 http://deb.debian.org/debian buster/main amd64 python-avro all 1.8.2+dfsg-2 [59.4 kB] Get: 89 http://deb.debian.org/debian buster/main amd64 python-babel-localedata all 2.6.0+dfsg.1-1 [4083 kB] Get: 90 http://deb.debian.org/debian buster/main amd64 python-certifi all 2018.8.24-1 [140 kB] Get: 91 http://deb.debian.org/debian buster/main amd64 python-pkg-resources all 40.8.0-1 [182 kB] Get: 92 http://deb.debian.org/debian buster/main amd64 python-chardet all 3.0.4-3 [80.6 kB] Get: 93 http://deb.debian.org/debian buster/main amd64 python-idna all 2.6-1 [34.1 kB] Get: 94 http://deb.debian.org/debian buster/main amd64 python-iso8601 all 0.1.11-1 [12.7 kB] Get: 95 http://deb.debian.org/debian buster/main amd64 python-nose all 1.3.7-4 [132 kB] Get: 96 http://deb.debian.org/debian buster/main amd64 python-numpy amd64 1:1.16.2-1 [2101 kB] Get: 97 http://deb.debian.org/debian buster/main amd64 python-six all 1.12.0-1 [15.7 kB] Get: 98 http://deb.debian.org/debian buster/main amd64 python-urllib3 all 1.24.1-1 [97.0 kB] Get: 99 http://deb.debian.org/debian buster/main amd64 python-requests all 2.21.0-1 [67.1 kB] Get: 100 http://deb.debian.org/debian buster/main amd64 python-tz all 2019.1-1 [33.6 kB] Get: 101 http://deb.debian.org/debian buster/main amd64 python-pbcommand all 1.1.1-1 [88.7 kB] Get: 102 http://deb.debian.org/debian buster/main amd64 python-pysam amd64 0.15.2+ds-2 [1629 kB] Get: 103 http://deb.debian.org/debian buster/main amd64 python-pbcore all 1.6.5+dfsg-1 [9100 kB] Get: 104 http://deb.debian.org/debian buster/main amd64 python-setuptools all 40.8.0-1 [382 kB] Get: 105 http://deb.debian.org/debian buster/main amd64 python3-alabaster all 0.7.8-1 [18.4 kB] Get: 106 http://deb.debian.org/debian buster/main amd64 python3-pkg-resources all 40.8.0-1 [153 kB] Get: 107 http://deb.debian.org/debian buster/main amd64 python3-tz all 2019.1-1 [27.1 kB] Get: 108 http://deb.debian.org/debian buster/main amd64 python3-babel all 2.6.0+dfsg.1-1 [96.7 kB] Get: 109 http://deb.debian.org/debian buster/main amd64 python3-certifi all 2018.8.24-1 [140 kB] Get: 110 http://deb.debian.org/debian buster/main amd64 python3-chardet all 3.0.4-3 [80.5 kB] Get: 111 http://deb.debian.org/debian buster/main amd64 python3-roman all 2.0.0-3 [8768 B] Get: 112 http://deb.debian.org/debian buster/main amd64 python3-docutils all 0.14+dfsg-4 [378 kB] Get: 113 http://deb.debian.org/debian buster/main amd64 python3-idna all 2.6-1 [34.3 kB] Get: 114 http://deb.debian.org/debian buster/main amd64 python3-imagesize all 1.0.0-1 [4960 B] Get: 115 http://deb.debian.org/debian buster/main amd64 python3-markupsafe amd64 1.1.0-1 [14.8 kB] Get: 116 http://deb.debian.org/debian buster/main amd64 python3-jinja2 all 2.10-2 [106 kB] Get: 117 http://deb.debian.org/debian buster/main amd64 python3-pyparsing all 2.2.0+dfsg1-2 [89.6 kB] Get: 118 http://deb.debian.org/debian buster/main amd64 python3-six all 1.12.0-1 [15.7 kB] Get: 119 http://deb.debian.org/debian buster/main amd64 python3-packaging all 19.0-1 [20.5 kB] Get: 120 http://deb.debian.org/debian buster/main amd64 python3-pygments all 2.3.1+dfsg-1+deb10u2 [594 kB] Get: 121 http://deb.debian.org/debian buster/main amd64 python3-urllib3 all 1.24.1-1 [97.1 kB] Get: 122 http://deb.debian.org/debian buster/main amd64 python3-requests all 2.21.0-1 [66.9 kB] Get: 123 http://deb.debian.org/debian buster/main amd64 sphinx-common all 1.8.4-1 [500 kB] Get: 124 http://deb.debian.org/debian buster/main amd64 python3-sphinx all 1.8.4-1 [481 kB] Fetched 58.0 MB in 2s (37.3 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libbsd0:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19195 files and directories currently installed.) Preparing to unpack .../00-libbsd0_0.9.1-2+deb10u1_amd64.deb ... Unpacking libbsd0:amd64 (0.9.1-2+deb10u1) ... Selecting previously unselected package bsdmainutils. Preparing to unpack .../01-bsdmainutils_11.1.2+b1_amd64.deb ... Unpacking bsdmainutils (11.1.2+b1) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../02-libuchardet0_0.0.6-3_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.6-3) ... Selecting previously unselected package groff-base. Preparing to unpack .../03-groff-base_1.22.4-3+deb10u1_amd64.deb ... Unpacking groff-base (1.22.4-3+deb10u1) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../04-libpipeline1_1.5.1-2_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.1-2) ... Selecting previously unselected package man-db. Preparing to unpack .../05-man-db_2.8.5-2_amd64.deb ... Unpacking man-db (2.8.5-2) ... Selecting previously unselected package libpython2.7-minimal:amd64. Preparing to unpack .../06-libpython2.7-minimal_2.7.16-2+deb10u1_amd64.deb ... Unpacking libpython2.7-minimal:amd64 (2.7.16-2+deb10u1) ... Selecting previously unselected package python2.7-minimal. Preparing to unpack .../07-python2.7-minimal_2.7.16-2+deb10u1_amd64.deb ... Unpacking python2.7-minimal (2.7.16-2+deb10u1) ... Selecting previously unselected package python2-minimal. Preparing to unpack .../08-python2-minimal_2.7.16-1_amd64.deb ... Unpacking python2-minimal (2.7.16-1) ... Selecting previously unselected package python-minimal. Preparing to unpack .../09-python-minimal_2.7.16-1_amd64.deb ... Unpacking python-minimal (2.7.16-1) ... Selecting previously unselected package libssl1.1:amd64. Preparing to unpack .../10-libssl1.1_1.1.1d-0+deb10u6_amd64.deb ... Unpacking libssl1.1:amd64 (1.1.1d-0+deb10u6) ... Selecting previously unselected package mime-support. Preparing to unpack .../11-mime-support_3.62_all.deb ... Unpacking mime-support (3.62) ... Selecting previously unselected package libexpat1:amd64. Preparing to unpack .../12-libexpat1_2.2.6-2+deb10u1_amd64.deb ... Unpacking libexpat1:amd64 (2.2.6-2+deb10u1) ... Selecting previously unselected package readline-common. Preparing to unpack .../13-readline-common_7.0-5_all.deb ... Unpacking readline-common (7.0-5) ... Selecting previously unselected package libreadline7:amd64. Preparing to unpack .../14-libreadline7_7.0-5_amd64.deb ... Unpacking libreadline7:amd64 (7.0-5) ... Selecting previously unselected package libpython2.7-stdlib:amd64. Preparing to unpack .../15-libpython2.7-stdlib_2.7.16-2+deb10u1_amd64.deb ... Unpacking libpython2.7-stdlib:amd64 (2.7.16-2+deb10u1) ... Selecting previously unselected package python2.7. Preparing to unpack .../16-python2.7_2.7.16-2+deb10u1_amd64.deb ... Unpacking python2.7 (2.7.16-2+deb10u1) ... Selecting previously unselected package libpython2-stdlib:amd64. Preparing to unpack .../17-libpython2-stdlib_2.7.16-1_amd64.deb ... Unpacking libpython2-stdlib:amd64 (2.7.16-1) ... Selecting previously unselected package libpython-stdlib:amd64. Preparing to unpack .../18-libpython-stdlib_2.7.16-1_amd64.deb ... Unpacking libpython-stdlib:amd64 (2.7.16-1) ... Setting up libpython2.7-minimal:amd64 (2.7.16-2+deb10u1) ... Setting up python2.7-minimal (2.7.16-2+deb10u1) ... Setting up python2-minimal (2.7.16-1) ... Selecting previously unselected package python2. (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 ... 20658 files and directories currently installed.) Preparing to unpack .../python2_2.7.16-1_amd64.deb ... Unpacking python2 (2.7.16-1) ... Setting up python-minimal (2.7.16-1) ... Selecting previously unselected package python. (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 ... 20691 files and directories currently installed.) Preparing to unpack .../python_2.7.16-1_amd64.deb ... Unpacking python (2.7.16-1) ... Selecting previously unselected package libpython3.7-minimal:amd64. Preparing to unpack .../libpython3.7-minimal_3.7.3-2+deb10u3_amd64.deb ... Unpacking libpython3.7-minimal:amd64 (3.7.3-2+deb10u3) ... Selecting previously unselected package python3.7-minimal. Preparing to unpack .../python3.7-minimal_3.7.3-2+deb10u3_amd64.deb ... Unpacking python3.7-minimal (3.7.3-2+deb10u3) ... Setting up libssl1.1:amd64 (1.1.1d-0+deb10u6) ... Setting up libpython3.7-minimal:amd64 (3.7.3-2+deb10u3) ... Setting up libexpat1:amd64 (2.2.6-2+deb10u1) ... Setting up python3.7-minimal (3.7.3-2+deb10u3) ... 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 ... 20945 files and directories currently installed.) Preparing to unpack .../python3-minimal_3.7.3-1_amd64.deb ... Unpacking python3-minimal (3.7.3-1) ... Selecting previously unselected package libmpdec2:amd64. Preparing to unpack .../libmpdec2_2.4.2-2_amd64.deb ... Unpacking libmpdec2:amd64 (2.4.2-2) ... Selecting previously unselected package libpython3.7-stdlib:amd64. Preparing to unpack .../libpython3.7-stdlib_3.7.3-2+deb10u3_amd64.deb ... Unpacking libpython3.7-stdlib:amd64 (3.7.3-2+deb10u3) ... Selecting previously unselected package python3.7. Preparing to unpack .../python3.7_3.7.3-2+deb10u3_amd64.deb ... Unpacking python3.7 (3.7.3-2+deb10u3) ... Selecting previously unselected package libpython3-stdlib:amd64. Preparing to unpack .../libpython3-stdlib_3.7.3-1_amd64.deb ... Unpacking libpython3-stdlib:amd64 (3.7.3-1) ... Setting up python3-minimal (3.7.3-1) ... 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 ... 21357 files and directories currently installed.) Preparing to unpack .../00-python3_3.7.3-1_amd64.deb ... Unpacking python3 (3.7.3-1) ... Selecting previously unselected package sgml-base. Preparing to unpack .../01-sgml-base_1.29_all.deb ... Unpacking sgml-base (1.29) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../02-sensible-utils_0.0.12_all.deb ... Unpacking sensible-utils (0.0.12) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../03-libmagic-mgc_1%3a5.35-4+deb10u2_amd64.deb ... Unpacking libmagic-mgc (1:5.35-4+deb10u2) ... Selecting previously unselected package libmagic1:amd64. Preparing to unpack .../04-libmagic1_1%3a5.35-4+deb10u2_amd64.deb ... Unpacking libmagic1:amd64 (1:5.35-4+deb10u2) ... Selecting previously unselected package file. Preparing to unpack .../05-file_1%3a5.35-4+deb10u2_amd64.deb ... Unpacking file (1:5.35-4+deb10u2) ... Selecting previously unselected package gettext-base. Preparing to unpack .../06-gettext-base_0.19.8.1-9_amd64.deb ... Unpacking gettext-base (0.19.8.1-9) ... Selecting previously unselected package libsigsegv2:amd64. Preparing to unpack .../07-libsigsegv2_2.12-2_amd64.deb ... Unpacking libsigsegv2:amd64 (2.12-2) ... Selecting previously unselected package m4. Preparing to unpack .../08-m4_1.4.18-2_amd64.deb ... Unpacking m4 (1.4.18-2) ... Selecting previously unselected package autoconf. 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Setting up libnghttp2-14:amd64 (1.36.0-2+deb10u1) ... Setting up libmagic1:amd64 (1:5.35-4+deb10u2) ... Setting up libdeflate0:amd64 (1.2-1) ... Setting up gettext-base (0.19.8.1-9) ... Setting up file (1:5.35-4+deb10u2) ... Setting up libldap-common (2.4.47+dfsg-3+deb10u6) ... Setting up libicu63:amd64 (63.1-6+deb10u1) ... Setting up python-babel-localedata (2.6.0+dfsg.1-1) ... Setting up libkrb5support0:amd64 (1.17-3+deb10u1) ... Setting up libsasl2-modules-db:amd64 (2.1.27+dfsg-1+deb10u1) ... Setting up autotools-dev (20180224.1) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2) ... Setting up libncurses6:amd64 (6.1+20181013-2+deb10u2) ... Setting up libsigsegv2:amd64 (2.12-2) ... Setting up autopoint (0.19.8.1-9) ... Setting up libk5crypto3:amd64 (1.17-3+deb10u1) ... Setting up libsasl2-2:amd64 (2.1.27+dfsg-1+deb10u1) ... Setting up libgfortran5:amd64 (8.3.0-6) ... Setting up sensible-utils (0.0.12) ... Setting up libuchardet0:amd64 (0.0.6-3) ... Setting up libssh2-1:amd64 (1.8.0-2.1) ... Setting up sgml-base (1.29) ... Setting up libkrb5-3:amd64 (1.17-3+deb10u1) ... Setting up libmpdec2:amd64 (2.4.2-2) ... Setting up libjs-jquery (3.3.1~dfsg-3+deb10u1) ... Setting up openssl (1.1.1d-0+deb10u6) ... Setting up libbsd0:amd64 (0.9.1-2+deb10u1) ... Setting up libelf1:amd64 (0.176-1.1) ... Setting up readline-common (7.0-5) ... Setting up libxml2:amd64 (2.9.4+dfsg1-7+deb10u2) ... Setting up libreadline7:amd64 (7.0-5) ... Setting up libjs-underscore (1.9.1~dfsg-1+deb10u1) ... Setting up libfile-stripnondeterminism-perl (1.1.2-1) ... Setting up libpython3.7-stdlib:amd64 (3.7.3-2+deb10u3) ... Setting up libtool (2.4.6-9) ... Setting up libldap-2.4-2:amd64 (2.4.47+dfsg-3+deb10u6) ... Setting up m4 (1.4.18-2) ... Setting up libpython2.7-stdlib:amd64 (2.7.16-2+deb10u1) ... Setting up ca-certificates (20200601~deb10u2) ... Updating certificates in /etc/ssl/certs... 137 added, 0 removed; done. Setting up libblas3:amd64 (3.8.0-2) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/x86_64-linux-gnu/libblas.so.3 (libblas.so.3-x86_64-linux-gnu) in auto mode Setting up bsdmainutils (11.1.2+b1) ... update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode Setting up libgssapi-krb5-2:amd64 (1.17-3+deb10u1) ... Setting up libcroco3:amd64 (0.6.12-3) ... Setting up libjs-sphinxdoc (1.8.4-1) ... Setting up autoconf (2.69-11) ... Setting up dwz (0.12-3) ... Setting up groff-base (1.22.4-3+deb10u1) ... Setting up xml-core (0.18+nmu1) ... Setting up libpython3-stdlib:amd64 (3.7.3-1) ... Setting up automake (1:1.16.1-4) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up python3.7 (3.7.3-2+deb10u3) ... Setting up liblapack3:amd64 (3.8.0-2) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/x86_64-linux-gnu/liblapack.so.3 (liblapack.so.3-x86_64-linux-gnu) in auto mode Setting up gettext (0.19.8.1-9) ... Setting up python2.7 (2.7.16-2+deb10u1) ... Setting up libpython2-stdlib:amd64 (2.7.16-1) ... Setting up libcurl3-gnutls:amd64 (7.64.0-4+deb10u2) ... Setting up python3 (3.7.3-1) ... Setting up man-db (2.8.5-2) ... Not building database; man-db/auto-update is not 'true'. Setting up python3-markupsafe (1.1.0-1) ... Setting up python2 (2.7.16-1) ... Setting up python3-tz (2019.1-1) ... Setting up intltool-debian (0.35.0+20060710.5) ... Setting up python3-six (1.12.0-1) ... Setting up libpython-stdlib:amd64 (2.7.16-1) ... Setting up python3-roman (2.0.0-3) ... Setting up python3-jinja2 (2.10-2) ... Setting up python3-pygments (2.3.1+dfsg-1+deb10u2) ... Setting up python3-pyparsing (2.2.0+dfsg1-2) ... Setting up python3-certifi (2018.8.24-1) ... Setting up sphinx-common (1.8.4-1) ... Setting up python3-idna (2.6-1) ... Setting up python3-urllib3 (1.24.1-1) ... Setting up python3-lib2to3 (3.7.3-1) ... Setting up python (2.7.16-1) ... Setting up python3-imagesize (1.0.0-1) ... Setting up python3-pkg-resources (40.8.0-1) ... Setting up python3-distutils (3.7.3-1) ... Setting up dh-python (3.20190308) ... Setting up libhts2:amd64 (1.9-11) ... Setting up python3-babel (2.6.0+dfsg.1-1) ... update-alternatives: using /usr/bin/pybabel-python3 to provide /usr/bin/pybabel (pybabel) in auto mode Setting up python-pkg-resources (40.8.0-1) ... Setting up python3-alabaster (0.7.8-1) ... Setting up po-debconf (1.0.21) ... Setting up python-iso8601 (0.1.11-1) ... Setting up python-all (2.7.16-1) ... Setting up python-certifi (2018.8.24-1) ... Setting up python-six (1.12.0-1) ... Setting up python3-packaging (19.0-1) ... Setting up python3-chardet (3.0.4-3) ... Setting up python-idna (2.6-1) ... Setting up python3-requests (2.21.0-1) ... Setting up python-setuptools (40.8.0-1) ... Setting up python-avro (1.8.2+dfsg-2) ... Setting up python-tz (2019.1-1) ... Setting up python-chardet (3.0.4-3) ... Setting up python-urllib3 (1.24.1-1) ... Setting up python-pysam (0.15.2+ds-2) ... Setting up python-numpy (1:1.16.2-1) ... Setting up python-nose (1.3.7-4) ... Setting up python-requests (2.21.0-1) ... Setting up python-pbcore (1.6.5+dfsg-1) ... Setting up python-pbcommand (1.1.1-1) ... Setting up debhelper (12.1.1) ... Setting up dh-autoreconf (19) ... Setting up dh-strip-nondeterminism (1.1.2-1) ... Processing triggers for libc-bin (2.28-10) ... Processing triggers for sgml-base (1.29) ... Setting up docutils-common (0.14+dfsg-4) ... Processing triggers for sgml-base (1.29) ... Setting up python3-docutils (0.14+dfsg-4) ... update-alternatives: using /usr/share/docutils/scripts/python3/rst-buildhtml to provide /usr/bin/rst-buildhtml (rst-buildhtml) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rst2html to provide /usr/bin/rst2html (rst2html) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rst2html4 to provide /usr/bin/rst2html4 (rst2html4) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rst2html5 to provide /usr/bin/rst2html5 (rst2html5) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rst2latex to provide /usr/bin/rst2latex (rst2latex) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rst2man to provide /usr/bin/rst2man (rst2man) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rst2odt to provide /usr/bin/rst2odt (rst2odt) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rst2odt_prepstyles to provide /usr/bin/rst2odt_prepstyles (rst2odt_prepstyles) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rst2pseudoxml to provide /usr/bin/rst2pseudoxml (rst2pseudoxml) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rst2s5 to provide /usr/bin/rst2s5 (rst2s5) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rst2xetex to provide /usr/bin/rst2xetex (rst2xetex) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rst2xml to provide /usr/bin/rst2xml (rst2xml) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rstpep2html to provide /usr/bin/rstpep2html (rstpep2html) in auto mode Setting up python3-sphinx (1.8.4-1) ... update-alternatives: using /usr/share/sphinx/scripts/python3/sphinx-apidoc to provide /usr/bin/sphinx-apidoc (sphinx-apidoc) in auto mode update-alternatives: using /usr/share/sphinx/scripts/python3/sphinx-autogen to provide /usr/bin/sphinx-autogen (sphinx-autogen) in auto mode update-alternatives: using /usr/share/sphinx/scripts/python3/sphinx-build to provide /usr/bin/sphinx-build (sphinx-build) in auto mode update-alternatives: using /usr/share/sphinx/scripts/python3/sphinx-quickstart to provide /usr/bin/sphinx-quickstart (sphinx-quickstart) in auto mode Processing triggers for ca-certificates (20200601~deb10u2) ... 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 Reading package lists... Building dependency tree... Reading state information... fakeroot is already the newest version (1.23-1). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. I: Building the package I: Running cd /build/pbalign-0.3.2/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b dpkg-buildpackage: info: source package pbalign dpkg-buildpackage: info: source version 0.3.2-1 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Steffen Moeller dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 fakeroot debian/rules clean dh clean --with=python2 --buildsystem=pybuild debian/rules override_dh_auto_clean make[1]: Entering directory '/build/pbalign-0.3.2' dh_auto_clean I: pybuild base:217: python2.7 setup.py clean /usr/lib/python2.7/distutils/dist.py:267: UserWarning: Unknown distribution option: 'test_requires' warnings.warn(msg) running clean removing '/build/pbalign-0.3.2/.pybuild/cpython2_2.7_pbalign/build' (and everything under it) 'build/bdist.linux-amd64' does not exist -- can't clean it 'build/scripts-2.7' does not exist -- can't clean it rm -rf doc/_build/ rm -f doc/pbalign.alignservice.rst doc/pbalign.rst doc/pbalign.tasks.rst doc/pbalign.tools.rst doc/pbalign.utils.rst rm -rf pbalign.egg-info make[1]: Leaving directory '/build/pbalign-0.3.2' dh_autoreconf_clean -O--buildsystem=pybuild dh_clean -O--buildsystem=pybuild debian/rules build dh build --with=python2 --buildsystem=pybuild dh_update_autotools_config -O--buildsystem=pybuild dh_autoreconf -O--buildsystem=pybuild dh_auto_configure -O--buildsystem=pybuild I: pybuild base:217: python2.7 setup.py config /usr/lib/python2.7/distutils/dist.py:267: UserWarning: Unknown distribution option: 'test_requires' warnings.warn(msg) running config debian/rules override_dh_auto_build make[1]: Entering directory '/build/pbalign-0.3.2' dh_auto_build I: pybuild base:217: /usr/bin/python setup.py build /usr/lib/python2.7/distutils/dist.py:267: UserWarning: Unknown distribution option: 'test_requires' warnings.warn(msg) running build running build_py creating /build/pbalign-0.3.2/.pybuild/cpython2_2.7_pbalign/build/pbalign copying pbalign/service.py -> /build/pbalign-0.3.2/.pybuild/cpython2_2.7_pbalign/build/pbalign copying pbalign/pbalignrunner.py -> /build/pbalign-0.3.2/.pybuild/cpython2_2.7_pbalign/build/pbalign copying pbalign/pbalignfiles.py -> /build/pbalign-0.3.2/.pybuild/cpython2_2.7_pbalign/build/pbalign copying pbalign/options.py -> /build/pbalign-0.3.2/.pybuild/cpython2_2.7_pbalign/build/pbalign copying pbalign/filterservice.py -> /build/pbalign-0.3.2/.pybuild/cpython2_2.7_pbalign/build/pbalign copying pbalign/ccs.py -> /build/pbalign-0.3.2/.pybuild/cpython2_2.7_pbalign/build/pbalign copying pbalign/bampostservice.py -> /build/pbalign-0.3.2/.pybuild/cpython2_2.7_pbalign/build/pbalign copying pbalign/__init__.py -> /build/pbalign-0.3.2/.pybuild/cpython2_2.7_pbalign/build/pbalign creating /build/pbalign-0.3.2/.pybuild/cpython2_2.7_pbalign/build/pbalign/utils copying pbalign/utils/RgnH5IO.py -> /build/pbalign-0.3.2/.pybuild/cpython2_2.7_pbalign/build/pbalign/utils copying pbalign/utils/tempfileutil.py -> /build/pbalign-0.3.2/.pybuild/cpython2_2.7_pbalign/build/pbalign/utils copying pbalign/utils/progutil.py -> /build/pbalign-0.3.2/.pybuild/cpython2_2.7_pbalign/build/pbalign/utils copying pbalign/utils/fileutil.py -> /build/pbalign-0.3.2/.pybuild/cpython2_2.7_pbalign/build/pbalign/utils copying pbalign/utils/__init__.py -> /build/pbalign-0.3.2/.pybuild/cpython2_2.7_pbalign/build/pbalign/utils creating /build/pbalign-0.3.2/.pybuild/cpython2_2.7_pbalign/build/pbalign/tools copying pbalign/tools/mask_aligned_reads.py -> /build/pbalign-0.3.2/.pybuild/cpython2_2.7_pbalign/build/pbalign/tools copying pbalign/tools/loadChemistry.py -> /build/pbalign-0.3.2/.pybuild/cpython2_2.7_pbalign/build/pbalign/tools copying pbalign/tools/extractUnmappedSubreads.py -> /build/pbalign-0.3.2/.pybuild/cpython2_2.7_pbalign/build/pbalign/tools copying pbalign/tools/createChemistryHeader.py -> /build/pbalign-0.3.2/.pybuild/cpython2_2.7_pbalign/build/pbalign/tools copying pbalign/tools/__init__.py -> /build/pbalign-0.3.2/.pybuild/cpython2_2.7_pbalign/build/pbalign/tools creating /build/pbalign-0.3.2/.pybuild/cpython2_2.7_pbalign/build/pbalign/tasks copying pbalign/tasks/align_minorvariants.py -> /build/pbalign-0.3.2/.pybuild/cpython2_2.7_pbalign/build/pbalign/tasks copying pbalign/tasks/__init__.py -> /build/pbalign-0.3.2/.pybuild/cpython2_2.7_pbalign/build/pbalign/tasks creating /build/pbalign-0.3.2/.pybuild/cpython2_2.7_pbalign/build/pbalign/alignservice copying pbalign/alignservice/gmap.py -> /build/pbalign-0.3.2/.pybuild/cpython2_2.7_pbalign/build/pbalign/alignservice copying pbalign/alignservice/fastabasedalign.py -> /build/pbalign-0.3.2/.pybuild/cpython2_2.7_pbalign/build/pbalign/alignservice copying pbalign/alignservice/bowtie.py -> /build/pbalign-0.3.2/.pybuild/cpython2_2.7_pbalign/build/pbalign/alignservice copying pbalign/alignservice/blasr.py -> /build/pbalign-0.3.2/.pybuild/cpython2_2.7_pbalign/build/pbalign/alignservice copying pbalign/alignservice/align.py -> /build/pbalign-0.3.2/.pybuild/cpython2_2.7_pbalign/build/pbalign/alignservice copying pbalign/alignservice/__init__.py -> /build/pbalign-0.3.2/.pybuild/cpython2_2.7_pbalign/build/pbalign/alignservice /usr/bin/make doc make[2]: Entering directory '/build/pbalign-0.3.2' sphinx-apidoc -T -f -o doc pbalign/ && cd doc && make html Creating file doc/pbalign.rst. Creating file doc/pbalign.alignservice.rst. Creating file doc/pbalign.tasks.rst. Creating file doc/pbalign.tools.rst. Creating file doc/pbalign.utils.rst. make[3]: Entering directory '/build/pbalign-0.3.2/doc' sphinx-build -b html -d _build/doctrees . _build/html Running Sphinx v1.8.4 making output directory... loading intersphinx inventory from http://docs.python.org/objects.inv... WARNING: failed to reach any of the inventories with the following issues: WARNING: intersphinx inventory 'http://docs.python.org/objects.inv' not fetchable due to : ('intersphinx inventory %r not fetchable due to %s: %s', 'http://docs.python.org/objects.inv', , ConnectionError(...)) building [mo]: targets for 0 po files that are out of date building [html]: targets for 7 source files that are out of date updating environment: 7 added, 0 changed, 0 removed reading sources... [ 14%] howto reading sources... [ 28%] index reading sources... [ 42%] pbalign reading sources... [ 57%] pbalign.alignservice reading sources... [ 71%] pbalign.tasks reading sources... [ 85%] pbalign.tools reading sources... [100%] pbalign.utils WARNING: autodoc: failed to import module 'bampostservice' from module 'pbalign'; the following exception was raised: No module named 'pbalign' WARNING: autodoc: failed to import module 'ccs' from module 'pbalign'; the following exception was raised: No module named 'pbalign' WARNING: autodoc: failed to import module 'filterservice' from module 'pbalign'; the following exception was raised: No module named 'pbalign' WARNING: autodoc: failed to import module 'options' from module 'pbalign'; the following exception was raised: No module named 'pbalign' WARNING: autodoc: failed to import module 'pbalignfiles' from module 'pbalign'; the following exception was raised: No module named 'pbalign' WARNING: autodoc: failed to import module 'pbalignrunner' from module 'pbalign'; the following exception was raised: No module named 'pbalign' WARNING: autodoc: failed to import module 'service' from module 'pbalign'; the following exception was raised: No module named 'pbalign' WARNING: autodoc: failed to import module 'pbalign'; the following exception was raised: No module named 'pbalign' WARNING: autodoc: failed to import module 'alignservice.align' from module 'pbalign'; the following exception was raised: No module named 'pbalign' WARNING: autodoc: failed to import module 'alignservice.blasr' from module 'pbalign'; the following exception was raised: No module named 'pbalign' WARNING: autodoc: failed to import module 'alignservice.bowtie' from module 'pbalign'; the following exception was raised: No module named 'pbalign' WARNING: autodoc: failed to import module 'alignservice.fastabasedalign' from module 'pbalign'; the following exception was raised: No module named 'pbalign' WARNING: autodoc: failed to import module 'alignservice.gmap' from module 'pbalign'; the following exception was raised: No module named 'pbalign' WARNING: autodoc: failed to import module 'alignservice' from module 'pbalign'; the following exception was raised: No module named 'pbalign' WARNING: autodoc: failed to import module 'tasks.align_minorvariants' from module 'pbalign'; the following exception was raised: No module named 'pbalign' WARNING: autodoc: failed to import module 'tasks' from module 'pbalign'; the following exception was raised: No module named 'pbalign' WARNING: autodoc: failed to import module 'tools.createChemistryHeader' from module 'pbalign'; the following exception was raised: No module named 'pbalign' WARNING: autodoc: failed to import module 'tools.extractUnmappedSubreads' from module 'pbalign'; the following exception was raised: No module named 'pbalign' WARNING: autodoc: failed to import module 'tools.loadChemistry' from module 'pbalign'; the following exception was raised: No module named 'pbalign' WARNING: autodoc: failed to import module 'tools.mask_aligned_reads' from module 'pbalign'; the following exception was raised: No module named 'pbalign' WARNING: autodoc: failed to import module 'tools' from module 'pbalign'; the following exception was raised: No module named 'pbalign' WARNING: autodoc: failed to import module 'utils.RgnH5IO' from module 'pbalign'; the following exception was raised: No module named 'pbalign' WARNING: autodoc: failed to import module 'utils.fileutil' from module 'pbalign'; the following exception was raised: No module named 'pbalign' WARNING: autodoc: failed to import module 'utils.progutil' from module 'pbalign'; the following exception was raised: No module named 'pbalign' WARNING: autodoc: failed to import module 'utils.tempfileutil' from module 'pbalign'; the following exception was raised: No module named 'pbalign' WARNING: autodoc: failed to import module 'utils' from module 'pbalign'; the following exception was raised: No module named 'pbalign' looking for now-outdated files... none found pickling environment... done checking consistency... /build/pbalign-0.3.2/doc/pbalign.rst: WARNING: document isn't included in any toctree done preparing documents... done writing output... [ 14%] howto writing output... [ 28%] index writing output... [ 42%] pbalign writing output... [ 57%] pbalign.alignservice writing output... [ 71%] pbalign.tasks writing output... [ 85%] pbalign.tools writing output... [100%] pbalign.utils generating indices... genindex writing additional pages... search copying static files... WARNING: html_static_path entry '/build/pbalign-0.3.2/doc/_static' does not exist done copying extra files... done dumping search index in English (code: en) ... done dumping object inventory... done build succeeded, 30 warnings. The HTML pages are in _build/html. Build finished. The HTML pages are in _build/html. make[3]: Leaving directory '/build/pbalign-0.3.2/doc' make[2]: Leaving directory '/build/pbalign-0.3.2' make[1]: Leaving directory '/build/pbalign-0.3.2' dh_auto_test -O--buildsystem=pybuild I: pybuild base:217: cd /build/pbalign-0.3.2/.pybuild/cpython2_2.7_pbalign/build; python2.7 -m nose -v tests ---------------------------------------------------------------------- Ran 0 tests in 0.001s OK create-stamp debian/debhelper-build-stamp fakeroot debian/rules binary dh binary --with=python2 --buildsystem=pybuild dh_testroot -O--buildsystem=pybuild dh_prep -O--buildsystem=pybuild dh_auto_install -O--buildsystem=pybuild I: pybuild base:217: /usr/bin/python setup.py install --root /build/pbalign-0.3.2/debian/python-pbalign /usr/lib/python2.7/distutils/dist.py:267: UserWarning: Unknown distribution option: 'test_requires' warnings.warn(msg) running install running build running build_py running install_lib creating /build/pbalign-0.3.2/debian/python-pbalign creating /build/pbalign-0.3.2/debian/python-pbalign/usr creating /build/pbalign-0.3.2/debian/python-pbalign/usr/lib creating /build/pbalign-0.3.2/debian/python-pbalign/usr/lib/python2.7 creating /build/pbalign-0.3.2/debian/python-pbalign/usr/lib/python2.7/dist-packages creating /build/pbalign-0.3.2/debian/python-pbalign/usr/lib/python2.7/dist-packages/pbalign creating /build/pbalign-0.3.2/debian/python-pbalign/usr/lib/python2.7/dist-packages/pbalign/alignservice copying /build/pbalign-0.3.2/.pybuild/cpython2_2.7_pbalign/build/pbalign/alignservice/__init__.py -> /build/pbalign-0.3.2/debian/python-pbalign/usr/lib/python2.7/dist-packages/pbalign/alignservice copying /build/pbalign-0.3.2/.pybuild/cpython2_2.7_pbalign/build/pbalign/alignservice/align.py -> /build/pbalign-0.3.2/debian/python-pbalign/usr/lib/python2.7/dist-packages/pbalign/alignservice copying /build/pbalign-0.3.2/.pybuild/cpython2_2.7_pbalign/build/pbalign/alignservice/blasr.py -> /build/pbalign-0.3.2/debian/python-pbalign/usr/lib/python2.7/dist-packages/pbalign/alignservice copying /build/pbalign-0.3.2/.pybuild/cpython2_2.7_pbalign/build/pbalign/alignservice/bowtie.py -> /build/pbalign-0.3.2/debian/python-pbalign/usr/lib/python2.7/dist-packages/pbalign/alignservice copying /build/pbalign-0.3.2/.pybuild/cpython2_2.7_pbalign/build/pbalign/alignservice/fastabasedalign.py -> /build/pbalign-0.3.2/debian/python-pbalign/usr/lib/python2.7/dist-packages/pbalign/alignservice copying /build/pbalign-0.3.2/.pybuild/cpython2_2.7_pbalign/build/pbalign/alignservice/gmap.py -> /build/pbalign-0.3.2/debian/python-pbalign/usr/lib/python2.7/dist-packages/pbalign/alignservice creating /build/pbalign-0.3.2/debian/python-pbalign/usr/lib/python2.7/dist-packages/pbalign/tasks copying /build/pbalign-0.3.2/.pybuild/cpython2_2.7_pbalign/build/pbalign/tasks/__init__.py -> /build/pbalign-0.3.2/debian/python-pbalign/usr/lib/python2.7/dist-packages/pbalign/tasks copying /build/pbalign-0.3.2/.pybuild/cpython2_2.7_pbalign/build/pbalign/tasks/align_minorvariants.py -> /build/pbalign-0.3.2/debian/python-pbalign/usr/lib/python2.7/dist-packages/pbalign/tasks creating /build/pbalign-0.3.2/debian/python-pbalign/usr/lib/python2.7/dist-packages/pbalign/tools copying /build/pbalign-0.3.2/.pybuild/cpython2_2.7_pbalign/build/pbalign/tools/__init__.py -> /build/pbalign-0.3.2/debian/python-pbalign/usr/lib/python2.7/dist-packages/pbalign/tools copying /build/pbalign-0.3.2/.pybuild/cpython2_2.7_pbalign/build/pbalign/tools/createChemistryHeader.py -> /build/pbalign-0.3.2/debian/python-pbalign/usr/lib/python2.7/dist-packages/pbalign/tools copying /build/pbalign-0.3.2/.pybuild/cpython2_2.7_pbalign/build/pbalign/tools/extractUnmappedSubreads.py -> /build/pbalign-0.3.2/debian/python-pbalign/usr/lib/python2.7/dist-packages/pbalign/tools copying /build/pbalign-0.3.2/.pybuild/cpython2_2.7_pbalign/build/pbalign/tools/loadChemistry.py -> /build/pbalign-0.3.2/debian/python-pbalign/usr/lib/python2.7/dist-packages/pbalign/tools copying /build/pbalign-0.3.2/.pybuild/cpython2_2.7_pbalign/build/pbalign/tools/mask_aligned_reads.py -> /build/pbalign-0.3.2/debian/python-pbalign/usr/lib/python2.7/dist-packages/pbalign/tools creating /build/pbalign-0.3.2/debian/python-pbalign/usr/lib/python2.7/dist-packages/pbalign/utils copying /build/pbalign-0.3.2/.pybuild/cpython2_2.7_pbalign/build/pbalign/utils/__init__.py -> /build/pbalign-0.3.2/debian/python-pbalign/usr/lib/python2.7/dist-packages/pbalign/utils copying /build/pbalign-0.3.2/.pybuild/cpython2_2.7_pbalign/build/pbalign/utils/fileutil.py -> /build/pbalign-0.3.2/debian/python-pbalign/usr/lib/python2.7/dist-packages/pbalign/utils copying /build/pbalign-0.3.2/.pybuild/cpython2_2.7_pbalign/build/pbalign/utils/progutil.py -> /build/pbalign-0.3.2/debian/python-pbalign/usr/lib/python2.7/dist-packages/pbalign/utils copying /build/pbalign-0.3.2/.pybuild/cpython2_2.7_pbalign/build/pbalign/utils/tempfileutil.py -> /build/pbalign-0.3.2/debian/python-pbalign/usr/lib/python2.7/dist-packages/pbalign/utils copying /build/pbalign-0.3.2/.pybuild/cpython2_2.7_pbalign/build/pbalign/utils/RgnH5IO.py -> /build/pbalign-0.3.2/debian/python-pbalign/usr/lib/python2.7/dist-packages/pbalign/utils copying /build/pbalign-0.3.2/.pybuild/cpython2_2.7_pbalign/build/pbalign/__init__.py -> /build/pbalign-0.3.2/debian/python-pbalign/usr/lib/python2.7/dist-packages/pbalign copying /build/pbalign-0.3.2/.pybuild/cpython2_2.7_pbalign/build/pbalign/bampostservice.py -> /build/pbalign-0.3.2/debian/python-pbalign/usr/lib/python2.7/dist-packages/pbalign copying /build/pbalign-0.3.2/.pybuild/cpython2_2.7_pbalign/build/pbalign/ccs.py -> /build/pbalign-0.3.2/debian/python-pbalign/usr/lib/python2.7/dist-packages/pbalign copying /build/pbalign-0.3.2/.pybuild/cpython2_2.7_pbalign/build/pbalign/filterservice.py -> /build/pbalign-0.3.2/debian/python-pbalign/usr/lib/python2.7/dist-packages/pbalign copying /build/pbalign-0.3.2/.pybuild/cpython2_2.7_pbalign/build/pbalign/options.py -> /build/pbalign-0.3.2/debian/python-pbalign/usr/lib/python2.7/dist-packages/pbalign copying /build/pbalign-0.3.2/.pybuild/cpython2_2.7_pbalign/build/pbalign/pbalignfiles.py -> /build/pbalign-0.3.2/debian/python-pbalign/usr/lib/python2.7/dist-packages/pbalign copying /build/pbalign-0.3.2/.pybuild/cpython2_2.7_pbalign/build/pbalign/pbalignrunner.py -> /build/pbalign-0.3.2/debian/python-pbalign/usr/lib/python2.7/dist-packages/pbalign copying /build/pbalign-0.3.2/.pybuild/cpython2_2.7_pbalign/build/pbalign/service.py -> /build/pbalign-0.3.2/debian/python-pbalign/usr/lib/python2.7/dist-packages/pbalign byte-compiling /build/pbalign-0.3.2/debian/python-pbalign/usr/lib/python2.7/dist-packages/pbalign/alignservice/__init__.py to __init__.pyc byte-compiling /build/pbalign-0.3.2/debian/python-pbalign/usr/lib/python2.7/dist-packages/pbalign/alignservice/align.py to align.pyc byte-compiling /build/pbalign-0.3.2/debian/python-pbalign/usr/lib/python2.7/dist-packages/pbalign/alignservice/blasr.py to blasr.pyc byte-compiling /build/pbalign-0.3.2/debian/python-pbalign/usr/lib/python2.7/dist-packages/pbalign/alignservice/bowtie.py to bowtie.pyc byte-compiling /build/pbalign-0.3.2/debian/python-pbalign/usr/lib/python2.7/dist-packages/pbalign/alignservice/fastabasedalign.py to fastabasedalign.pyc byte-compiling /build/pbalign-0.3.2/debian/python-pbalign/usr/lib/python2.7/dist-packages/pbalign/alignservice/gmap.py to gmap.pyc byte-compiling /build/pbalign-0.3.2/debian/python-pbalign/usr/lib/python2.7/dist-packages/pbalign/tasks/__init__.py to __init__.pyc byte-compiling /build/pbalign-0.3.2/debian/python-pbalign/usr/lib/python2.7/dist-packages/pbalign/tasks/align_minorvariants.py to align_minorvariants.pyc byte-compiling /build/pbalign-0.3.2/debian/python-pbalign/usr/lib/python2.7/dist-packages/pbalign/tools/__init__.py to __init__.pyc byte-compiling /build/pbalign-0.3.2/debian/python-pbalign/usr/lib/python2.7/dist-packages/pbalign/tools/createChemistryHeader.py to createChemistryHeader.pyc byte-compiling /build/pbalign-0.3.2/debian/python-pbalign/usr/lib/python2.7/dist-packages/pbalign/tools/extractUnmappedSubreads.py to extractUnmappedSubreads.pyc byte-compiling /build/pbalign-0.3.2/debian/python-pbalign/usr/lib/python2.7/dist-packages/pbalign/tools/loadChemistry.py to loadChemistry.pyc byte-compiling /build/pbalign-0.3.2/debian/python-pbalign/usr/lib/python2.7/dist-packages/pbalign/tools/mask_aligned_reads.py to mask_aligned_reads.pyc byte-compiling /build/pbalign-0.3.2/debian/python-pbalign/usr/lib/python2.7/dist-packages/pbalign/utils/__init__.py to __init__.pyc byte-compiling /build/pbalign-0.3.2/debian/python-pbalign/usr/lib/python2.7/dist-packages/pbalign/utils/fileutil.py to fileutil.pyc byte-compiling /build/pbalign-0.3.2/debian/python-pbalign/usr/lib/python2.7/dist-packages/pbalign/utils/progutil.py to progutil.pyc byte-compiling /build/pbalign-0.3.2/debian/python-pbalign/usr/lib/python2.7/dist-packages/pbalign/utils/tempfileutil.py to tempfileutil.pyc byte-compiling /build/pbalign-0.3.2/debian/python-pbalign/usr/lib/python2.7/dist-packages/pbalign/utils/RgnH5IO.py to RgnH5IO.pyc byte-compiling /build/pbalign-0.3.2/debian/python-pbalign/usr/lib/python2.7/dist-packages/pbalign/__init__.py to __init__.pyc byte-compiling /build/pbalign-0.3.2/debian/python-pbalign/usr/lib/python2.7/dist-packages/pbalign/bampostservice.py to bampostservice.pyc byte-compiling /build/pbalign-0.3.2/debian/python-pbalign/usr/lib/python2.7/dist-packages/pbalign/ccs.py to ccs.pyc byte-compiling /build/pbalign-0.3.2/debian/python-pbalign/usr/lib/python2.7/dist-packages/pbalign/filterservice.py to filterservice.pyc byte-compiling /build/pbalign-0.3.2/debian/python-pbalign/usr/lib/python2.7/dist-packages/pbalign/options.py to options.pyc byte-compiling /build/pbalign-0.3.2/debian/python-pbalign/usr/lib/python2.7/dist-packages/pbalign/pbalignfiles.py to pbalignfiles.pyc byte-compiling /build/pbalign-0.3.2/debian/python-pbalign/usr/lib/python2.7/dist-packages/pbalign/pbalignrunner.py to pbalignrunner.pyc byte-compiling /build/pbalign-0.3.2/debian/python-pbalign/usr/lib/python2.7/dist-packages/pbalign/service.py to service.pyc running install_egg_info running egg_info creating pbalign.egg-info writing requirements to pbalign.egg-info/requires.txt writing pbalign.egg-info/PKG-INFO writing top-level names to pbalign.egg-info/top_level.txt writing dependency_links to pbalign.egg-info/dependency_links.txt writing entry points to pbalign.egg-info/entry_points.txt writing manifest file 'pbalign.egg-info/SOURCES.txt' reading manifest file 'pbalign.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' writing manifest file 'pbalign.egg-info/SOURCES.txt' Copying pbalign.egg-info to /build/pbalign-0.3.2/debian/python-pbalign/usr/lib/python2.7/dist-packages/pbalign-0.3.2.egg-info Skipping SOURCES.txt running install_scripts Installing pbalign script to /build/pbalign-0.3.2/debian/python-pbalign/usr/bin Installing extractUnmappedSubreads.py script to /build/pbalign-0.3.2/debian/python-pbalign/usr/bin Installing createChemistryHeader.py script to /build/pbalign-0.3.2/debian/python-pbalign/usr/bin Installing loadChemistry.py script to /build/pbalign-0.3.2/debian/python-pbalign/usr/bin Installing maskAlignedReads.py script to /build/pbalign-0.3.2/debian/python-pbalign/usr/bin debian/rules override_dh_install make[1]: Entering directory '/build/pbalign-0.3.2' dh_install # Remove .py suffix from scripts (we'll make symlinks to replace them) for script in extractUnmappedSubreads \ loadChemistry \ createChemistryHeader \ maskAlignedReads; \ do \ mv /build/pbalign-0.3.2/debian/python-pbalign/usr/bin/$script.py /build/pbalign-0.3.2/debian/python-pbalign/usr/bin/$script; \ # mv /build/pbalign-0.3.2/debian/pbalign/usr/share/man/man1/$script.py.1 /build/pbalign-0.3.2/debian/pbalign/usr/share/man/man1/$script.1; \ done # Place executables in the pbalign package mkdir -p /build/pbalign-0.3.2/debian/pbalign/usr/bin mv /build/pbalign-0.3.2/debian/python-pbalign/usr/bin/* /build/pbalign-0.3.2/debian/pbalign/usr/bin make[1]: Leaving directory '/build/pbalign-0.3.2' dh_installdocs -O--buildsystem=pybuild dh_installchangelogs -O--buildsystem=pybuild dh_installman -O--buildsystem=pybuild dh_python2 -O--buildsystem=pybuild I: dh_python2 tools:114: replacing shebang in debian/pbalign/usr/bin/pbalign I: dh_python2 tools:114: replacing shebang in debian/pbalign/usr/bin/maskAlignedReads I: dh_python2 tools:114: replacing shebang in debian/pbalign/usr/bin/loadChemistry I: dh_python2 tools:114: replacing shebang in debian/pbalign/usr/bin/extractUnmappedSubreads I: dh_python2 tools:114: replacing shebang in debian/pbalign/usr/bin/createChemistryHeader dh_installinit -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_installdeb -O--buildsystem=pybuild dh_gencontrol -O--buildsystem=pybuild dpkg-gencontrol: warning: package python-pbalign: substitution variable ${python:Provides} unused, but is defined dpkg-gencontrol: warning: package python-pbalign: substitution variable ${python:Versions} unused, but is defined dh_md5sums -O--buildsystem=pybuild dh_builddeb -O--buildsystem=pybuild dpkg-deb: building package 'pbalign' in '../pbalign_0.3.2-1_all.deb'. dpkg-deb: building package 'pbalign-doc' in '../pbalign-doc_0.3.2-1_all.deb'. dpkg-deb: building package 'python-pbalign' in '../python-pbalign_0.3.2-1_all.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary >../pbalign_0.3.2-1_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) 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/53800 and its subdirectories I: Current time: Mon Sep 12 07:46:07 -12 2022 I: pbuilder-time-stamp: 1663011967 Tue Aug 10 13:23:07 UTC 2021 I: 1st build successful. Starting 2nd build on remote node ionos11-amd64.debian.net. Tue Aug 10 13:23:07 UTC 2021 I: Preparing to do remote build '2' on ionos11-amd64.debian.net. Tue Aug 10 13:24:15 UTC 2021 I: Deleting $TMPDIR on ionos11-amd64.debian.net. Tue Aug 10 13:24:15 UTC 2021 I: pbalign_0.3.2-1_amd64.changes: Format: 1.8 Date: Sat, 26 Jan 2019 13:20:46 +0100 Source: pbalign Binary: pbalign pbalign-doc python-pbalign Architecture: all Version: 0.3.2-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Steffen Moeller Description: pbalign - map Pacific Biosciences reads to reference DNA sequences pbalign-doc - documentation for pbalign python-pbalign - map Pacific Biosciences reads to reference DNA sequences (Python2 Changes: pbalign (0.3.2-1) unstable; urgency=medium . * Team upload . * Standards-Version: 4.2.1 * d/rules: clean up all build remnants . * TODO: Python3-version, added README.Debian as a reminder Checksums-Sha1: be59edc18d24b5ab9b0ee4873f260bbcf6a45822 41456 pbalign-doc_0.3.2-1_all.deb 9f094451448a608a2224db672ec076a23937e9b4 9516 pbalign_0.3.2-1_all.deb 541202c2d548c753ec746746adf266b35bd53c97 8094 pbalign_0.3.2-1_amd64.buildinfo 2ff3d69f0abc012c6150a20ec3d39c5e47525451 37376 python-pbalign_0.3.2-1_all.deb Checksums-Sha256: 91d68417dcb0ea263ec2448fb3272e76765463e81c91d1a4783c82cdd66ea755 41456 pbalign-doc_0.3.2-1_all.deb 60dfa9b73408b8792ac92eef2a2b845422ec9fc16e51d902b8250b50b11ebac3 9516 pbalign_0.3.2-1_all.deb 2bbec2db04e24de5815fb90f17cd9a77b8a84b8c5a175416b808bd90c15c68f1 8094 pbalign_0.3.2-1_amd64.buildinfo 8d8cce30f3d0a03e4867c26b7bda7f0620d9e755f620909d8c7cab73ec3c3489 37376 python-pbalign_0.3.2-1_all.deb Files: 7886aaf23aa182e0635768a9c4b3b2b1 41456 doc optional pbalign-doc_0.3.2-1_all.deb b5fdc69a4ce38b556ccd4513d44e5422 9516 python optional pbalign_0.3.2-1_all.deb 683fcca7c4c9c267af0deada91f0ca65 8094 python optional pbalign_0.3.2-1_amd64.buildinfo 52479fb528e766082ad389ce8c8f3c2f 37376 python optional python-pbalign_0.3.2-1_all.deb Tue Aug 10 13:24:17 UTC 2021 I: diffoscope 180 will be used to compare the two builds: # Profiling output for: /usr/bin/diffoscope --html /srv/reproducible-results/rbuild-debian/tmp.NhvDnpEXGb/pbalign_0.3.2-1.diffoscope.html --text /srv/reproducible-results/rbuild-debian/tmp.NhvDnpEXGb/pbalign_0.3.2-1.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/tmp.NhvDnpEXGb/pbalign_0.3.2-1.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/tmp.NhvDnpEXGb/b1/pbalign_0.3.2-1_amd64.changes /srv/reproducible-results/rbuild-debian/tmp.NhvDnpEXGb/b2/pbalign_0.3.2-1_amd64.changes ## command (total time: 0.000s) 0.000s 1 call cmp (internal) ## has_same_content_as (total time: 0.000s) 0.000s 1 call abc.DotChangesFile ## main (total time: 0.271s) 0.271s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.028s) 0.028s 10 calls diffoscope.comparators.binary.FilesystemFile 0.000s 8 calls abc.DotChangesFile Tue Aug 10 13:24:19 UTC 2021 I: diffoscope 180 found no differences in the changes files, and a .buildinfo file also exists. Tue Aug 10 13:24:19 UTC 2021 I: pbalign from buster built successfully and reproducibly on amd64. Tue Aug 10 13:24:21 UTC 2021 I: Submitting .buildinfo files to external archives: Tue Aug 10 13:24:21 UTC 2021 I: Submitting 12K b1/pbalign_0.3.2-1_amd64.buildinfo.asc Tue Aug 10 13:24:22 UTC 2021 I: Submitting 12K b2/pbalign_0.3.2-1_amd64.buildinfo.asc Tue Aug 10 13:24:23 UTC 2021 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Tue Aug 10 13:24:23 UTC 2021 I: Done submitting .buildinfo files. Tue Aug 10 13:24:23 UTC 2021 I: Removing signed pbalign_0.3.2-1_amd64.buildinfo.asc files: removed './b1/pbalign_0.3.2-1_amd64.buildinfo.asc' removed './b2/pbalign_0.3.2-1_amd64.buildinfo.asc'