I: pbuilder: network access will be disabled during build I: Current time: Wed Nov 23 10:52:02 +14 2022 I: pbuilder-time-stamp: 1669150322 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 [python-gffutils_0.10.1-2.dsc] I: copying [./python-gffutils_0.10.1.orig.tar.gz] I: copying [./python-gffutils_0.10.1-2.debian.tar.xz] I: Extracting source gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/tmp/dpkg-verify-sig.lGsoWJ0s/trustedkeys.kbx': General error gpgv: Signature made Tue Feb 18 23:43:51 2020 +14 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 ./python-gffutils_0.10.1-2.dsc dpkg-source: info: extracting python-gffutils in python-gffutils-0.10.1 dpkg-source: info: unpacking python-gffutils_0.10.1.orig.tar.gz dpkg-source: info: unpacking python-gffutils_0.10.1-2.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying newer_bedtools dpkg-source: info: applying python3 dpkg-source: info: applying 99ba2581a184a6660ee6d8d8b6a422cd298eeee4.patch I: using fakeroot in build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/4158009/tmp/hooks/D01_modify_environment starting debug: Running on ionos15-amd64. I: Changing host+domainname to test build reproducibility I: Adding a custom variable just for the fun of it... I: Changing /bin/sh to bash Removing 'diversion of /bin/sh to /bin/sh.distrib by dash' Adding 'diversion of /bin/sh to /bin/sh.distrib by bash' Removing 'diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by dash' Adding 'diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by bash' I: Setting pbuilder2's login shell to /bin/bash I: Setting pbuilder2's GECOS to second user,second room,second work-phone,second home-phone,second other I: user script /srv/workspace/pbuilder/4158009/tmp/hooks/D01_modify_environment finished I: user script /srv/workspace/pbuilder/4158009/tmp/hooks/D02_print_environment starting I: set BASH=/bin/sh BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:hostcomplete:interactive_comments:progcomp:promptvars:sourcepath BASH_ALIASES=() BASH_ARGC=() BASH_ARGV=() BASH_CMDS=() BASH_LINENO=([0]="12" [1]="0") BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") BASH_VERSINFO=([0]="5" [1]="1" [2]="4" [3]="1" [4]="release" [5]="x86_64-pc-linux-gnu") BASH_VERSION='5.1.4(1)-release' BUILDDIR=/build BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' BUILDUSERNAME=pbuilder2 BUILD_ARCH=amd64 DEBIAN_FRONTEND=noninteractive DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all,-fixfilepath parallel=16' DIRSTACK=() DISTRIBUTION= EUID=0 FUNCNAME=([0]="Echo" [1]="main") GROUPS=() HOME=/root HOSTNAME=i-capture-the-hostname HOSTTYPE=x86_64 HOST_ARCH=amd64 IFS=' ' INVOCATION_ID=73eee83382e3473d9993817dc874fb35 LANG=C LANGUAGE=et_EE:et LC_ALL=C MACHTYPE=x86_64-pc-linux-gnu MAIL=/var/mail/root OPTERR=1 OPTIND=1 OSTYPE=linux-gnu PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path PBCURRENTCOMMANDLINEOPERATION=build PBUILDER_OPERATION=build PBUILDER_PKGDATADIR=/usr/share/pbuilder PBUILDER_PKGLIBDIR=/usr/lib/pbuilder PBUILDER_SYSCONFDIR=/etc PIPESTATUS=([0]="0") POSIXLY_CORRECT=y PPID=4158009 PS4='+ ' PWD=/ SHELL=/bin/bash SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix SHLVL=3 SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/tmp.sLPCWMG4Y8/pbuilderrc_isQ2 --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bullseye-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.sLPCWMG4Y8/b2 --logfile b2/build.log python-gffutils_0.10.1-2.dsc' SUDO_GID=111 SUDO_UID=106 SUDO_USER=jenkins TERM=unknown TZ=/usr/share/zoneinfo/Etc/GMT-14 UID=0 USER=root _='I: set' http_proxy=http://85.184.249.68:3128 I: uname -a Linux i-capture-the-hostname 5.10.0-9-amd64 #1 SMP Debian 5.10.70-1 (2021-09-30) x86_64 GNU/Linux I: ls -l /bin total 5476 -rwxr-xr-x 1 root root 1234376 Aug 5 2021 bash -rwxr-xr-x 3 root root 38984 Jul 21 2020 bunzip2 -rwxr-xr-x 3 root root 38984 Jul 21 2020 bzcat lrwxrwxrwx 1 root root 6 Jul 21 2020 bzcmp -> bzdiff -rwxr-xr-x 1 root root 2225 Jul 21 2020 bzdiff lrwxrwxrwx 1 root root 6 Jul 21 2020 bzegrep -> bzgrep -rwxr-xr-x 1 root root 4877 Sep 5 2019 bzexe lrwxrwxrwx 1 root root 6 Jul 21 2020 bzfgrep -> bzgrep -rwxr-xr-x 1 root root 3775 Jul 21 2020 bzgrep -rwxr-xr-x 3 root root 38984 Jul 21 2020 bzip2 -rwxr-xr-x 1 root root 18424 Jul 21 2020 bzip2recover lrwxrwxrwx 1 root root 6 Jul 21 2020 bzless -> bzmore -rwxr-xr-x 1 root root 1297 Jul 21 2020 bzmore -rwxr-xr-x 1 root root 43936 Sep 24 2020 cat -rwxr-xr-x 1 root root 72672 Sep 24 2020 chgrp -rwxr-xr-x 1 root root 64448 Sep 24 2020 chmod -rwxr-xr-x 1 root root 72672 Sep 24 2020 chown -rwxr-xr-x 1 root root 151168 Sep 24 2020 cp -rwxr-xr-x 1 root root 125560 Dec 11 2020 dash -rwxr-xr-x 1 root root 113664 Sep 24 2020 date -rwxr-xr-x 1 root root 80968 Sep 24 2020 dd -rwxr-xr-x 1 root root 93936 Sep 24 2020 df -rwxr-xr-x 1 root root 147176 Sep 24 2020 dir -rwxr-xr-x 1 root root 84440 Jul 29 2021 dmesg lrwxrwxrwx 1 root root 8 Nov 8 2019 dnsdomainname -> hostname lrwxrwxrwx 1 root root 8 Nov 8 2019 domainname -> hostname -rwxr-xr-x 1 root root 39712 Sep 24 2020 echo -rwxr-xr-x 1 root root 28 Nov 10 2020 egrep -rwxr-xr-x 1 root root 39680 Sep 24 2020 false -rwxr-xr-x 1 root root 28 Nov 10 2020 fgrep -rwxr-xr-x 1 root root 69032 Jul 29 2021 findmnt -rwsr-xr-x 1 root root 34896 Feb 27 2021 fusermount -rwxr-xr-x 1 root root 203072 Nov 10 2020 grep -rwxr-xr-x 2 root root 2346 Mar 3 2021 gunzip -rwxr-xr-x 1 root root 6376 Mar 3 2021 gzexe -rwxr-xr-x 1 root root 98048 Mar 3 2021 gzip -rwxr-xr-x 1 root root 22600 Nov 8 2019 hostname -rwxr-xr-x 1 root root 72840 Sep 24 2020 ln -rwxr-xr-x 1 root root 56952 Feb 8 2020 login -rwxr-xr-x 1 root root 147176 Sep 24 2020 ls -rwxr-xr-x 1 root root 149736 Jul 29 2021 lsblk -rwxr-xr-x 1 root root 85184 Sep 24 2020 mkdir -rwxr-xr-x 1 root root 76896 Sep 24 2020 mknod -rwxr-xr-x 1 root root 48064 Sep 24 2020 mktemp -rwxr-xr-x 1 root root 59632 Jul 29 2021 more -rwsr-xr-x 1 root root 55528 Jul 29 2021 mount -rwxr-xr-x 1 root root 18664 Jul 29 2021 mountpoint -rwxr-xr-x 1 root root 147080 Sep 24 2020 mv lrwxrwxrwx 1 root root 8 Nov 8 2019 nisdomainname -> hostname lrwxrwxrwx 1 root root 14 Apr 19 2021 pidof -> /sbin/killall5 -rwxr-xr-x 1 root root 43872 Sep 24 2020 pwd lrwxrwxrwx 1 root root 4 Aug 5 2021 rbash -> bash -rwxr-xr-x 1 root root 52032 Sep 24 2020 readlink -rwxr-xr-x 1 root root 72704 Sep 24 2020 rm -rwxr-xr-x 1 root root 52032 Sep 24 2020 rmdir -rwxr-xr-x 1 root root 27472 Sep 28 2020 run-parts -rwxr-xr-x 1 root root 122224 Dec 23 2018 sed lrwxrwxrwx 1 root root 4 Nov 23 10:52 sh -> bash lrwxrwxrwx 1 root root 4 Nov 10 05:47 sh.distrib -> dash -rwxr-xr-x 1 root root 43808 Sep 24 2020 sleep -rwxr-xr-x 1 root root 84928 Sep 24 2020 stty -rwsr-xr-x 1 root root 71912 Jul 29 2021 su -rwxr-xr-x 1 root root 39744 Sep 24 2020 sync -rwxr-xr-x 1 root root 531928 Feb 17 2021 tar -rwxr-xr-x 1 root root 14456 Sep 28 2020 tempfile -rwxr-xr-x 1 root root 101408 Sep 24 2020 touch -rwxr-xr-x 1 root root 39680 Sep 24 2020 true -rwxr-xr-x 1 root root 14328 Feb 27 2021 ulockmgr_server -rwsr-xr-x 1 root root 35040 Jul 29 2021 umount -rwxr-xr-x 1 root root 39744 Sep 24 2020 uname -rwxr-xr-x 2 root root 2346 Mar 3 2021 uncompress -rwxr-xr-x 1 root root 147176 Sep 24 2020 vdir -rwxr-xr-x 1 root root 63744 Jul 29 2021 wdctl lrwxrwxrwx 1 root root 8 Nov 8 2019 ypdomainname -> hostname -rwxr-xr-x 1 root root 1984 Mar 3 2021 zcat -rwxr-xr-x 1 root root 1678 Mar 3 2021 zcmp -rwxr-xr-x 1 root root 5880 Mar 3 2021 zdiff -rwxr-xr-x 1 root root 29 Mar 3 2021 zegrep -rwxr-xr-x 1 root root 29 Mar 3 2021 zfgrep -rwxr-xr-x 1 root root 2081 Mar 3 2021 zforce -rwxr-xr-x 1 root root 7585 Mar 3 2021 zgrep -rwxr-xr-x 1 root root 2206 Mar 3 2021 zless -rwxr-xr-x 1 root root 1842 Mar 3 2021 zmore -rwxr-xr-x 1 root root 4553 Mar 3 2021 znew I: user script /srv/workspace/pbuilder/4158009/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-compat (= 12), dh-python, bedtools, python3-all, python3-setuptools, python3-simplejson, python3-six, python3-argcomplete, python3-argh, python3-pyfaidx, python3-nose, python3-biopython, python3-pybedtools, help2man dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19655 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 12); 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 bedtools; however: Package bedtools is not installed. pbuilder-satisfydepends-dummy depends on python3-all; however: Package python3-all is not installed. pbuilder-satisfydepends-dummy depends on python3-setuptools; however: Package python3-setuptools is not installed. pbuilder-satisfydepends-dummy depends on python3-simplejson; however: Package python3-simplejson is not installed. pbuilder-satisfydepends-dummy depends on python3-six; however: Package python3-six is not installed. pbuilder-satisfydepends-dummy depends on python3-argcomplete; however: Package python3-argcomplete is not installed. pbuilder-satisfydepends-dummy depends on python3-argh; however: Package python3-argh is not installed. pbuilder-satisfydepends-dummy depends on python3-pyfaidx; however: Package python3-pyfaidx is not installed. pbuilder-satisfydepends-dummy depends on python3-nose; however: Package python3-nose is not installed. pbuilder-satisfydepends-dummy depends on python3-biopython; however: Package python3-biopython is not installed. pbuilder-satisfydepends-dummy depends on python3-pybedtools; however: Package python3-pybedtools is not installed. pbuilder-satisfydepends-dummy depends on help2man; however: Package help2man 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} bedtools{a} bsdextrautils{a} debhelper{a} dh-autoreconf{a} dh-python{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} help2man{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} libfile-stripnondeterminism-perl{a} libfreetype6{a} libgfortran5{a} libhts3{a} libicu67{a} libimagequant0{a} libjbig0{a} libjpeg62-turbo{a} liblapack3{a} liblcms2-2{a} libldap-2.4-2{a} liblocale-gettext-perl{a} libmagic-mgc{a} libmagic1{a} libmd0{a} libmpdec3{a} libnghttp2-14{a} libpipeline1{a} libpng16-16{a} libpsl5{a} libpython3-stdlib{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} python3{a} python3-all{a} python3-argcomplete{a} python3-argh{a} python3-biopython{a} python3-distutils{a} python3-lib2to3{a} python3-minimal{a} python3-nose{a} python3-numpy{a} python3-pil{a} python3-pkg-resources{a} python3-pybedtools{a} python3-pyfaidx{a} python3-pysam{a} python3-reportlab{a} python3-reportlab-accel{a} python3-setuptools{a} python3-simplejson{a} python3-six{a} python3.9{a} python3.9-minimal{a} readline-common{a} sensible-utils{a} The following packages are RECOMMENDED but will NOT be installed: ca-certificates curl libarchive-cpio-perl libldap-common libltdl-dev libmail-sendmail-perl libsasl2-modules lynx ncbi-blast+ publicsuffix python-biopython-doc python3-olefile python3-renderpm wget 0 packages upgraded, 96 newly installed, 0 to remove and 0 not upgraded. Need to get 51.7 MB of archives. After unpacking 167 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian bullseye/main amd64 bsdextrautils amd64 2.36.1-8 [145 kB] Get: 2 http://deb.debian.org/debian bullseye/main amd64 libuchardet0 amd64 0.0.7-1 [67.8 kB] Get: 3 http://deb.debian.org/debian bullseye/main amd64 groff-base amd64 1.22.4-6 [936 kB] Get: 4 http://deb.debian.org/debian bullseye/main amd64 libpipeline1 amd64 1.5.3-1 [34.3 kB] Get: 5 http://deb.debian.org/debian bullseye/main amd64 man-db amd64 2.9.4-2 [1354 kB] Get: 6 http://deb.debian.org/debian bullseye/main amd64 liblocale-gettext-perl amd64 1.07-4+b1 [19.0 kB] Get: 7 http://deb.debian.org/debian bullseye/main amd64 libpython3.9-minimal amd64 3.9.2-1 [801 kB] Get: 8 http://deb.debian.org/debian bullseye/main amd64 libexpat1 amd64 2.2.10-2 [96.9 kB] Get: 9 http://deb.debian.org/debian bullseye/main amd64 python3.9-minimal amd64 3.9.2-1 [1955 kB] Get: 10 http://deb.debian.org/debian bullseye/main amd64 python3-minimal amd64 3.9.2-3 [38.2 kB] Get: 11 http://deb.debian.org/debian bullseye/main amd64 media-types all 4.0.0 [30.3 kB] Get: 12 http://deb.debian.org/debian bullseye/main amd64 mailcap all 3.69 [31.7 kB] Get: 13 http://deb.debian.org/debian bullseye/main amd64 mime-support all 3.66 [10.9 kB] Get: 14 http://deb.debian.org/debian bullseye/main amd64 libmpdec3 amd64 2.5.1-1 [87.7 kB] Get: 15 http://deb.debian.org/debian bullseye/main amd64 readline-common all 8.1-1 [73.7 kB] Get: 16 http://deb.debian.org/debian bullseye/main amd64 libreadline8 amd64 8.1-1 [169 kB] Get: 17 http://deb.debian.org/debian bullseye/main amd64 libpython3.9-stdlib amd64 3.9.2-1 [1684 kB] Get: 18 http://deb.debian.org/debian bullseye/main amd64 python3.9 amd64 3.9.2-1 [466 kB] Get: 19 http://deb.debian.org/debian bullseye/main amd64 libpython3-stdlib amd64 3.9.2-3 [21.4 kB] Get: 20 http://deb.debian.org/debian bullseye/main amd64 python3 amd64 3.9.2-3 [37.9 kB] Get: 21 http://deb.debian.org/debian bullseye/main amd64 sensible-utils all 0.0.14 [14.8 kB] Get: 22 http://deb.debian.org/debian bullseye/main amd64 libmagic-mgc amd64 1:5.39-3 [273 kB] Get: 23 http://deb.debian.org/debian bullseye/main amd64 libmagic1 amd64 1:5.39-3 [126 kB] Get: 24 http://deb.debian.org/debian bullseye/main amd64 file amd64 1:5.39-3 [69.1 kB] Get: 25 http://deb.debian.org/debian bullseye/main amd64 gettext-base amd64 0.21-4 [175 kB] Get: 26 http://deb.debian.org/debian bullseye/main amd64 libsigsegv2 amd64 2.13-1 [34.8 kB] Get: 27 http://deb.debian.org/debian bullseye/main amd64 m4 amd64 1.4.18-5 [204 kB] Get: 28 http://deb.debian.org/debian bullseye/main amd64 autoconf all 2.69-14 [313 kB] Get: 29 http://deb.debian.org/debian bullseye/main amd64 autotools-dev all 20180224.1+nmu1 [77.1 kB] Get: 30 http://deb.debian.org/debian bullseye/main amd64 automake all 1:1.16.3-2 [814 kB] Get: 31 http://deb.debian.org/debian bullseye/main amd64 autopoint all 0.21-4 [510 kB] Get: 32 http://deb.debian.org/debian bullseye/main amd64 bedtools amd64 2.30.0+dfsg-1 [663 kB] Get: 33 http://deb.debian.org/debian bullseye/main amd64 libdebhelper-perl all 13.3.4 [189 kB] Get: 34 http://deb.debian.org/debian bullseye/main amd64 libtool all 2.4.6-15 [513 kB] Get: 35 http://deb.debian.org/debian bullseye/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 36 http://deb.debian.org/debian bullseye/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 37 http://deb.debian.org/debian bullseye/main amd64 libsub-override-perl all 0.09-2 [10.2 kB] Get: 38 http://deb.debian.org/debian bullseye/main amd64 libfile-stripnondeterminism-perl all 1.12.0-1 [26.3 kB] Get: 39 http://deb.debian.org/debian bullseye/main amd64 dh-strip-nondeterminism all 1.12.0-1 [15.4 kB] Get: 40 http://deb.debian.org/debian bullseye/main amd64 libelf1 amd64 0.183-1 [165 kB] Get: 41 http://deb.debian.org/debian bullseye/main amd64 dwz amd64 0.13+20210201-1 [175 kB] Get: 42 http://deb.debian.org/debian bullseye/main amd64 libicu67 amd64 67.1-7 [8622 kB] Get: 43 http://deb.debian.org/debian bullseye/main amd64 libxml2 amd64 2.9.10+dfsg-6.7 [693 kB] Get: 44 http://deb.debian.org/debian bullseye/main amd64 gettext amd64 0.21-4 [1311 kB] Get: 45 http://deb.debian.org/debian bullseye/main amd64 intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get: 46 http://deb.debian.org/debian bullseye/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 47 http://deb.debian.org/debian bullseye/main amd64 debhelper all 13.3.4 [1049 kB] Get: 48 http://deb.debian.org/debian bullseye/main amd64 python3-lib2to3 all 3.9.2-1 [77.8 kB] Get: 49 http://deb.debian.org/debian bullseye/main amd64 python3-distutils all 3.9.2-1 [143 kB] Get: 50 http://deb.debian.org/debian bullseye/main amd64 dh-python all 4.20201102+nmu1 [99.4 kB] Get: 51 http://deb.debian.org/debian bullseye/main amd64 help2man amd64 1.48.1 [190 kB] Get: 52 http://deb.debian.org/debian bullseye/main amd64 libblas3 amd64 3.9.0-3 [153 kB] Get: 53 http://deb.debian.org/debian bullseye/main amd64 libbrotli1 amd64 1.0.9-2+b2 [279 kB] Get: 54 http://deb.debian.org/debian bullseye/main amd64 libmd0 amd64 1.0.3-3 [28.0 kB] Get: 55 http://deb.debian.org/debian bullseye/main amd64 libbsd0 amd64 0.11.3-1 [108 kB] Get: 56 http://deb.debian.org/debian bullseye/main amd64 libsasl2-modules-db amd64 2.1.27+dfsg-2.1 [69.1 kB] Get: 57 http://deb.debian.org/debian bullseye/main amd64 libsasl2-2 amd64 2.1.27+dfsg-2.1 [106 kB] Get: 58 http://deb.debian.org/debian bullseye/main amd64 libldap-2.4-2 amd64 2.4.57+dfsg-3 [232 kB] Get: 59 http://deb.debian.org/debian bullseye/main amd64 libnghttp2-14 amd64 1.43.0-1 [77.1 kB] Get: 60 http://deb.debian.org/debian bullseye/main amd64 libpsl5 amd64 0.21.0-1.2 [57.3 kB] Get: 61 http://deb.debian.org/debian bullseye/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b2 [60.8 kB] Get: 62 http://deb.debian.org/debian bullseye/main amd64 libssh2-1 amd64 1.9.0-2 [156 kB] Get: 63 http://deb.debian.org/debian bullseye/main amd64 libcurl3-gnutls amd64 7.74.0-1.3+b1 [338 kB] Get: 64 http://deb.debian.org/debian bullseye/main amd64 libdeflate0 amd64 1.7-1 [53.1 kB] Get: 65 http://deb.debian.org/debian bullseye/main amd64 libpng16-16 amd64 1.6.37-3 [294 kB] Get: 66 http://deb.debian.org/debian bullseye/main amd64 libfreetype6 amd64 2.10.4+dfsg-1 [418 kB] Get: 67 http://deb.debian.org/debian bullseye/main amd64 libgfortran5 amd64 10.2.1-6 [727 kB] Get: 68 http://deb.debian.org/debian bullseye/main amd64 libhts3 amd64 1.11-4 [378 kB] Get: 69 http://deb.debian.org/debian bullseye/main amd64 libimagequant0 amd64 2.12.2-1.1 [32.5 kB] Get: 70 http://deb.debian.org/debian bullseye/main amd64 libjbig0 amd64 2.1-3.1+b2 [31.0 kB] Get: 71 http://deb.debian.org/debian bullseye/main amd64 libjpeg62-turbo amd64 1:2.0.6-4 [151 kB] Get: 72 http://deb.debian.org/debian bullseye/main amd64 liblapack3 amd64 3.9.0-3 [2166 kB] Get: 73 http://deb.debian.org/debian bullseye/main amd64 liblcms2-2 amd64 2.12~rc1-2 [150 kB] Get: 74 http://deb.debian.org/debian bullseye/main amd64 libwebp6 amd64 0.6.1-2.1 [258 kB] Get: 75 http://deb.debian.org/debian bullseye/main amd64 libtiff5 amd64 4.2.0-1 [289 kB] Get: 76 http://deb.debian.org/debian bullseye/main amd64 libwebpdemux2 amd64 0.6.1-2.1 [87.7 kB] Get: 77 http://deb.debian.org/debian bullseye/main amd64 libwebpmux3 amd64 0.6.1-2.1 [97.6 kB] Get: 78 http://deb.debian.org/debian bullseye/main amd64 libxau6 amd64 1:1.0.9-1 [19.7 kB] Get: 79 http://deb.debian.org/debian bullseye/main amd64 libxdmcp6 amd64 1:1.1.2-3 [26.3 kB] Get: 80 http://deb.debian.org/debian bullseye/main amd64 libxcb1 amd64 1.14-3 [140 kB] Get: 81 http://deb.debian.org/debian bullseye/main amd64 python3-all amd64 3.9.2-3 [1056 B] Get: 82 http://deb.debian.org/debian bullseye/main amd64 python3-argcomplete all 1.8.1-1.5 [29.7 kB] Get: 83 http://deb.debian.org/debian bullseye/main amd64 python3-argh all 0.26.2-1.1 [25.1 kB] Get: 84 http://deb.debian.org/debian bullseye/main amd64 python3-pkg-resources all 52.0.0-4 [190 kB] Get: 85 http://deb.debian.org/debian bullseye/main amd64 python3-numpy amd64 1:1.19.5-1 [2693 kB] Get: 86 http://deb.debian.org/debian bullseye/main amd64 python3-reportlab-accel amd64 3.5.59-2 [39.1 kB] Get: 87 http://deb.debian.org/debian bullseye/main amd64 python3-pil amd64 8.1.2+dfsg-0.3 [445 kB] Get: 88 http://deb.debian.org/debian bullseye/main amd64 python3-reportlab all 3.5.59-2 [575 kB] Get: 89 http://deb.debian.org/debian bullseye/main amd64 python3-biopython amd64 1.78+dfsg-4 [1402 kB] Get: 90 http://deb.debian.org/debian bullseye/main amd64 python3-nose all 1.3.7-7 [133 kB] Get: 91 http://deb.debian.org/debian bullseye/main amd64 python3-pysam amd64 0.15.4+ds-3+b2 [1536 kB] Get: 92 http://deb.debian.org/debian bullseye/main amd64 python3-six all 1.16.0-2 [17.5 kB] Get: 93 http://deb.debian.org/debian bullseye/main amd64 python3-pybedtools amd64 0.8.0-5+b2 [12.1 MB] Get: 94 http://deb.debian.org/debian bullseye/main amd64 python3-pyfaidx all 0.5.9.2-1 [26.4 kB] Get: 95 http://deb.debian.org/debian bullseye/main amd64 python3-setuptools all 52.0.0-4 [366 kB] Get: 96 http://deb.debian.org/debian bullseye/main amd64 python3-simplejson amd64 3.17.2-1 [61.7 kB] Fetched 51.7 MB in 1s (71.0 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package bsdextrautils. 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Setting up file (1:5.39-3) ... Setting up libjbig0:amd64 (2.1-3.1+b2) ... Setting up libsasl2-modules-db:amd64 (2.1.27+dfsg-2.1) ... Setting up autotools-dev (20180224.1+nmu1) ... Setting up libblas3:amd64 (3.9.0-3) ... 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 libjpeg62-turbo:amd64 (1:2.0.6-4) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b2) ... Setting up libsigsegv2:amd64 (2.13-1) ... Setting up libimagequant0:amd64 (2.12.2-1.1) ... Setting up libpng16-16:amd64 (1.6.37-3) ... Setting up autopoint (0.21-4) ... Setting up libwebp6:amd64 (0.6.1-2.1) ... Setting up libsasl2-2:amd64 (2.1.27+dfsg-2.1) ... Setting up libgfortran5:amd64 (10.2.1-6) ... Setting up libmd0:amd64 (1.0.3-3) ... Setting up sensible-utils (0.0.14) ... Setting up libuchardet0:amd64 (0.0.7-1) ... Setting up libmpdec3:amd64 (2.5.1-1) ... 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Setting up python3 (3.9.2-3) ... Setting up python3-six (1.16.0-2) ... Setting up python3-simplejson (3.17.2-1) ... Setting up python3-pil:amd64 (8.1.2+dfsg-0.3) ... Setting up python3-reportlab-accel:amd64 (3.5.59-2) ... Setting up python3-reportlab (3.5.59-2) ... Setting up python3-argcomplete (1.8.1-1.5) ... 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-pyfaidx (0.5.9.2-1) ... Setting up python3-argh (0.26.2-1.1) ... Setting up python3-pysam (0.15.4+ds-3+b2) ... Setting up python3-setuptools (52.0.0-4) ... Setting up python3-all (3.9.2-3) ... Setting up python3-nose (1.3.7-7) ... Setting up python3-numpy (1:1.19.5-1) ... Setting up python3-biopython (1.78+dfsg-4) ... Setting up python3-pybedtools (0.8.0-5+b2) ... Processing triggers for libc-bin (2.31-13+deb11u2) ... 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 (1.25.3-1.1). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. I: Building the package hostname: Name or service not known I: Running cd /build/python-gffutils-0.10.1/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-genchanges -S > ../python-gffutils_0.10.1-2_source.changes dpkg-buildpackage: info: source package python-gffutils dpkg-buildpackage: info: source version 0.10.1-2 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 fakeroot debian/rules clean dh clean --with python3 --buildsystem=pybuild dh_auto_clean -O--buildsystem=pybuild I: pybuild base:232: python3.9 setup.py clean running clean removing '/build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build' (and everything under it) 'build/bdist.linux-x86_64' does not exist -- can't clean it 'build/scripts-3.9' does not exist -- can't clean it dh_autoreconf_clean -O--buildsystem=pybuild dh_clean -O--buildsystem=pybuild debian/rules build dh build --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 debian/rules override_dh_auto_build make[1]: Entering directory '/build/python-gffutils-0.10.1' dh_auto_build I: pybuild base:232: /usr/bin/python3 setup.py build running build running build_py creating /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils copying gffutils/iterators.py -> /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils copying gffutils/version.py -> /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils copying gffutils/pybedtools_integration.py -> /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils copying gffutils/parser.py -> /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils copying gffutils/merge_criteria.py -> /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils copying gffutils/interface.py -> /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils copying gffutils/inspect.py -> /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils copying gffutils/helpers.py -> /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils copying gffutils/gffwriter.py -> /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils copying gffutils/feature.py -> /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils copying gffutils/exceptions.py -> /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils copying gffutils/create.py -> /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils copying gffutils/convert.py -> /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils copying gffutils/constants.py -> /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils copying gffutils/biopython_integration.py -> /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils copying gffutils/bins.py -> /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils copying gffutils/attributes.py -> /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils copying gffutils/__init__.py -> /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils package init file 'gffutils/scripts/__init__.py' not found (or not a regular file) creating /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/scripts copying gffutils/scripts/gffutils-flybase-convert.py -> /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/scripts creating /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test copying gffutils/test/test.py -> /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test copying gffutils/test/test_merge_all.py -> /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test copying gffutils/test/test_merge.py -> /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test copying gffutils/test/test_biopython_integration.py -> /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test copying gffutils/test/synth_test_base.py -> /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test copying gffutils/test/performance_test.py -> /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test copying gffutils/test/parser_test.py -> /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test copying gffutils/test/helpers_test.py -> /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test copying gffutils/test/feature_test.py -> /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test copying gffutils/test/expected.py -> /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test copying gffutils/test/attr_test_cases.py -> /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test copying gffutils/test/__init__.py -> /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test package init file 'gffutils/test/data/__init__.py' not found (or not a regular file) creating /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/data copying gffutils/test/data/wormbase_gff2_alt.txt -> /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/data copying gffutils/test/data/wormbase_gff2.txt -> /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/data copying gffutils/test/data/unsanitized.gff -> /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/data copying gffutils/test/data/synthetic.gff3 -> /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/data copying gffutils/test/data/random-chr.gff -> /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/data copying gffutils/test/data/nonascii -> /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/data copying gffutils/test/data/ncbi_gff3.txt -> /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/data copying gffutils/test/data/mouse_extra_comma.gff3 -> /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/data copying gffutils/test/data/keyval_sep_in_attrs.gff -> /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/data copying gffutils/test/data/keep-order-test.gtf -> /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/data copying gffutils/test/data/jgi_gff2.txt -> /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/data copying gffutils/test/data/intro_docs_example.gff -> /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/data copying gffutils/test/data/hybrid1.gff3 -> /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/data copying gffutils/test/data/glimmer_nokeyval.gff3 -> /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/data copying gffutils/test/data/gff_example1.gff3.gz -> /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/data copying gffutils/test/data/gff_example1.gff3 -> /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/data copying gffutils/test/data/gencode.vM8.chromsizes.txt -> /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/data copying gffutils/test/data/gencode.vM8.5000_transcript_ids.txt -> /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/data copying gffutils/test/data/gencode.vM8.5000_gene_ids.txt -> /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/data copying gffutils/test/data/gencode-v19.gtf -> /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/data copying gffutils/test/data/ensembl_gtf.txt -> /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/data copying gffutils/test/data/download-large-annotation-files.sh -> /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/data copying gffutils/test/data/dmel-all-no-analysis-r5.49_50k_lines.gff -> /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/data copying gffutils/test/data/dm6-chr2L.fa -> /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/data copying gffutils/test/data/c_elegans_WS199_shortened_gff.txt -> /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/data copying gffutils/test/data/c_elegans_WS199_dna_shortened.fa -> /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/data copying gffutils/test/data/c_elegans_WS199_ann_gff.txt -> /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/data copying gffutils/test/data/Saccharomyces_cerevisiae.R64-1-1.83.chromsizes.txt -> /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/data copying gffutils/test/data/Saccharomyces_cerevisiae.R64-1-1.83.5000_transcript_ids.txt -> /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/data copying gffutils/test/data/Saccharomyces_cerevisiae.R64-1-1.83.5000_gene_ids.txt -> /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/data copying gffutils/test/data/FBgn0031208.gtf -> /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/data copying gffutils/test/data/FBgn0031208.gff -> /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/data copying gffutils/test/data/F3-unique-3.v2.gff -> /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/data running build_scripts creating build creating build/scripts-3.9 copying and adjusting gffutils/scripts/gffutils-cli -> build/scripts-3.9 changing mode of build/scripts-3.9/gffutils-cli from 644 to 755 PYTHONPATH=/build/python-gffutils-0.10.1 PATH=/build/python-gffutils-0.10.1/gffutils/scripts/:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path \ help2man --version-string=0.10.1 --no-info \ --name="Command line interface for python-gffutils." \ gffutils-cli > debian/gffutils-cli.1 PYTHONPATH=/build/python-gffutils-0.10.1 PATH=/build/python-gffutils-0.10.1/gffutils/scripts/:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path \ help2man --version-string=0.10.1 --no-info \ --include <(echo -e "[NAME]\ngffutils-cli_fetch \- Fetch IDs") \ 'gffutils-cli fetch' > debian/gffutils-cli-fetch.1 PYTHONPATH=/build/python-gffutils-0.10.1 PATH=/build/python-gffutils-0.10.1/gffutils/scripts/:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path \ help2man --version-string=0.10.1 --no-info \ --include <(echo -e "[NAME]\ngffutils-cli_children \- Fetch children from the database according to ID") \ 'gffutils-cli children' > debian/gffutils-cli-children.1 PYTHONPATH=/build/python-gffutils-0.10.1 PATH=/build/python-gffutils-0.10.1/gffutils/scripts/:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path \ help2man --version-string=0.10.1 --no-info \ --include <(echo -e "[NAME]\ngffutils-cli_parents \- Fetch parents from the database according to ID") \ 'gffutils-cli parents' > debian/gffutils-cli-parents.1 PYTHONPATH=/build/python-gffutils-0.10.1 PATH=/build/python-gffutils-0.10.1/gffutils/scripts/:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path \ help2man --version-string=0.10.1 --no-info \ --include <(echo -e "[NAME]\ngffutils-cli_region \- Returns features within provided genomic coordinates") \ 'gffutils-cli region' > debian/gffutils-cli-region.1 PYTHONPATH=/build/python-gffutils-0.10.1 PATH=/build/python-gffutils-0.10.1/gffutils/scripts/:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path \ help2man --version-string=0.10.1 --no-info \ --include <(echo -e "[NAME]\ngffutils-cli_create \- Create a database") \ 'gffutils-cli create' > debian/gffutils-cli-create.1 PYTHONPATH=/build/python-gffutils-0.10.1 PATH=/build/python-gffutils-0.10.1/gffutils/scripts/:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path \ help2man --version-string=0.10.1 --no-info \ --include <(echo -e "[NAME]\ngffutils-cli_common \- Identify child features in common") \ 'gffutils-cli common' > debian/gffutils-cli-common.1 PYTHONPATH=/build/python-gffutils-0.10.1 PATH=/build/python-gffutils-0.10.1/gffutils/scripts/:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path \ help2man --version-string=0.10.1 --no-info \ --include <(echo -e "[NAME]\ngffutils-cli_clean \- Perform various QC operations to clean a GFF or GTF file") \ 'gffutils-cli clean' > debian/gffutils-cli-clean.1 PYTHONPATH=/build/python-gffutils-0.10.1 PATH=/build/python-gffutils-0.10.1/gffutils/scripts/:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path \ help2man --version-string=0.10.1 --no-info \ --include <(echo -e "[NAME]\ngffutils-cli_sanitize \- Sanitize a GFF file") \ 'gffutils-cli sanitize' > debian/gffutils-cli-sanitize.1 PYTHONPATH=/build/python-gffutils-0.10.1 PATH=/build/python-gffutils-0.10.1/gffutils/scripts/:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path \ help2man --version-string=0.10.1 --no-info \ --include <(echo -e "[NAME]\ngffutils-cli_rmdups \- Remove duplicates from a GFF file") \ 'gffutils-cli rmdups' > debian/gffutils-cli-rmdups.1 make[1]: Leaving directory '/build/python-gffutils-0.10.1' dh_auto_test -O--buildsystem=pybuild I: pybuild base:232: cd /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build; python3.9 -m nose -v --with-doctest -a '!slow' Doctest: gffutils.attributes.Attributes.__init__ ... ok Doctest: gffutils.pybedtools_integration.tsses ... 0 of 8 (0%) 1 of 8 (12%) 2 of 8 (25%) 3 of 8 (37%) 4 of 8 (50%) 5 of 8 (62%) 6 of 8 (75%) /usr/lib/python3.9/subprocess.py:935: RuntimeWarning: line buffering (buffering=1) isn't supported in binary mode, the default buffer size will be used self.stdin = io.open(p2cwrite, 'wb', bufsize) /usr/lib/python3.9/subprocess.py:946: RuntimeWarning: line buffering (buffering=1) isn't supported in binary mode, the default buffer size will be used self.stderr = io.open(errread, 'rb', bufsize) /usr/lib/python3.9/subprocess.py:935: RuntimeWarning: line buffering (buffering=1) isn't supported in binary mode, the default buffer size will be used self.stdin = io.open(p2cwrite, 'wb', bufsize) /usr/lib/python3.9/subprocess.py:946: RuntimeWarning: line buffering (buffering=1) isn't supported in binary mode, the default buffer size will be used self.stderr = io.open(errread, 'rb', bufsize) /usr/lib/python3.9/subprocess.py:946: RuntimeWarning: line buffering (buffering=1) isn't supported in binary mode, the default buffer size will be used self.stderr = io.open(errread, 'rb', bufsize) /usr/lib/python3.9/subprocess.py:935: RuntimeWarning: line buffering (buffering=1) isn't supported in binary mode, the default buffer size will be used self.stdin = io.open(p2cwrite, 'wb', bufsize) /usr/lib/python3.9/subprocess.py:946: RuntimeWarning: line buffering (buffering=1) isn't supported in binary mode, the default buffer size will be used self.stderr = io.open(errread, 'rb', bufsize) /usr/lib/python3.9/subprocess.py:935: RuntimeWarning: line buffering (buffering=1) isn't supported in binary mode, the default buffer size will be used self.stdin = io.open(p2cwrite, 'wb', bufsize) /usr/lib/python3.9/subprocess.py:946: RuntimeWarning: line buffering (buffering=1) isn't supported in binary mode, the default buffer size will be used self.stderr = io.open(errread, 'rb', bufsize) /usr/lib/python3.9/subprocess.py:946: RuntimeWarning: line buffering (buffering=1) isn't supported in binary mode, the default buffer size will be used self.stderr = io.open(errread, 'rb', bufsize) /usr/lib/python3.9/subprocess.py:935: RuntimeWarning: line buffering (buffering=1) isn't supported in binary mode, the default buffer size will be used self.stdin = io.open(p2cwrite, 'wb', bufsize) /usr/lib/python3.9/subprocess.py:946: RuntimeWarning: line buffering (buffering=1) isn't supported in binary mode, the default buffer size will be used self.stderr = io.open(errread, 'rb', bufsize) /usr/lib/python3.9/subprocess.py:946: RuntimeWarning: line buffering (buffering=1) isn't supported in binary mode, the default buffer size will be used self.stderr = io.open(errread, 'rb', bufsize) /usr/lib/python3.9/subprocess.py:946: RuntimeWarning: line buffering (buffering=1) isn't supported in binary mode, the default buffer size will be used self.stderr = io.open(errread, 'rb', bufsize) ok gffutils.test.feature_test.test_feature_from_line ... ok gffutils.test.feature_test.test_default_feature ... ok gffutils.test.feature_test.test_attributes_representations ... ok gffutils.test.feature_test.test_default_start_stop ... ok gffutils.test.feature_test.test_aliases ... ok gffutils.test.feature_test.test_string_representation ... ok gffutils.test.feature_test.test_pbt_interval_conversion ... ok gffutils.test.feature_test.test_hash ... ok gffutils.test.feature_test.test_repr ... ok gffutils.test.feature_test.test_attribute_order ... ok gffutils.test.feature_test.test_unjsonify ... ok test_merge_Attributes (gffutils.test.helpers_test.Test) ... ok Tests all possible cases of merging two dictionaries together ... ok gffutils.test.parser_test.test_directives ... ok gffutils.test.parser_test.test_split_attrs('count=1;gene=amx-2;sequence=SAGE:ggcagagtcttttggca;transcript=B0019.1', {'count': ['1'], 'gene': ['amx-2'], 'sequence': ['SAGE:ggcagagtcttttggca'], 'transcript': ['B0019.1']}, None) ... ok gffutils.test.parser_test.test_split_attrs('gene_id "Y74C9A.6"; transcript_id "Y74C9A.6"; exon_number "1"; gene_name "Y74C9A.6"; transcript_name "NR_001477.2";', {'gene_id': ['Y74C9A.6'], 'transcript_id': ['Y74C9A.6'], 'exon_number': ['1'], 'gene_name': ['Y74C9A.6'], 'transcript_name': ['NR_001477.2']}, None) ... ok gffutils.test.parser_test.test_split_attrs('g=A3233312322232122211;i=1;p=1.000;q=23,12,18,17,10,24,19,14,27,9,23,9,16,20,11,7,8,4,4,14;u=0,0,0,1', {'g': ['A3233312322232122211'], 'i': ['1'], 'p': ['1.000'], 'q': ['23', '12', '18', '17', '10', '24', '19', '14', '27', '9', '23', '9', '16', '20', '11', '7', '8', '4', '4', '14'], 'u': ['0', '0', '0', '1']}, None) ... ok gffutils.test.parser_test.test_split_attrs("ID=GL0000006;Name=GL0000006;Lack 3'-end;", {'ID': ['GL0000006'], 'Name': ['GL0000006'], "Lack 3'-end": []}, None) ... ok gffutils.test.parser_test.test_split_attrs('ID=A00469;Dbxref=AFFX-U133:205840_x_at,Locuslink:2688,Genbank-mRNA:A00469,Swissprot:P01241,PFAM:PF00103,AFFX-U95:1332_f_at,Swissprot:SOMA_HUMAN;Note=growth%20hormone%201;Alias=GH1', {'ID': ['A00469'], 'Dbxref': ['AFFX-U133:205840_x_at', 'Locuslink:2688', 'Genbank-mRNA:A00469', 'Swissprot:P01241', 'PFAM:PF00103', 'AFFX-U95:1332_f_at', 'Swissprot:SOMA_HUMAN'], 'Note': ['growth hormone 1'], 'Alias': ['GH1']}, 'ID=A00469;Dbxref=AFFX-U133:205840_x_at,Locuslink:2688,Genbank-mRNA:A00469,Swissprot:P01241,PFAM:PF00103,AFFX-U95:1332_f_at,Swissprot:SOMA_HUMAN;Note=growth hormone 1;Alias=GH1') ... ok gffutils.test.parser_test.test_split_attrs('name "fgenesh1_pg.C_chr_1000007"; transcriptId 873', {'name': ['fgenesh1_pg.C_chr_1000007'], 'transcriptId': ['873']}, 'name "fgenesh1_pg.C_chr_1000007"; transcriptId "873"') ... ok gffutils.test.parser_test.test_split_attrs('Name=CDS:NC_000083.5:LOC100040603;Parent=XM_001475631.1,', {'Name': ['CDS:NC_000083.5:LOC100040603'], 'Parent': ['XM_001475631.1', '']}, None) ... ok gffutils.test.parser_test.test_split_attrs('ID=;Parent=XM_001475631.1', {'ID': [], 'Parent': ['XM_001475631.1']}, 'ID;Parent=XM_001475631.1') ... ok gffutils.test.parser_test.test_split_attrs('ID=NC_008596.1:speB:unknown_transcript_1;Parent=NC_008596.1:speB;locus_tag=MSMEG_1072;EC_number=3.5.3.11;note=identified%20by%20match%20to%20protein%20family%20HMM%20PF00491%3B%20match%20to%20protein%20family%20HMM%20TIGR01230;transl_table=11;product=agmatinase;protein_id=YP_885468.1;db_xref=GI:118469242;db_xref=GeneID:4535378;exon_number=1', {'ID': ['NC_008596.1:speB:unknown_transcript_1'], 'Parent': ['NC_008596.1:speB'], 'locus_tag': ['MSMEG_1072'], 'EC_number': ['3.5.3.11'], 'note': ['identified by match to protein family HMM PF00491; match to protein family HMM TIGR01230'], 'transl_table': ['11'], 'product': ['agmatinase'], 'protein_id': ['YP_885468.1'], 'db_xref': ['GI:118469242', 'GeneID:4535378'], 'exon_number': ['1']}, 'ID=NC_008596.1:speB:unknown_transcript_1;Parent=NC_008596.1:speB;locus_tag=MSMEG_1072;EC_number=3.5.3.11;note=identified by match to protein family HMM PF00491%3B match to protein family HMM TIGR01230;transl_table=11;product=agmatinase;protein_id=YP_885468.1;db_xref=GI:118469242;db_xref=GeneID:4535378;exon_number=1') ... ok gffutils.test.parser_test.test_split_attrs('CDS "cr01.sctg102.wum.2.1"', {'CDS': ['cr01.sctg102.wum.2.1']}, None) ... ok Just confirm we can iterate completely through the test files.... ... ok reconstructing attributes with incomplete information returns empty string ... ok gffutils.test.parser_test.test_empty_split_keyvals ... ok if dialect says repeated keys, but len(vals) > 1, then the keys are not ... ok make sure from string and from file return identical results ... ok gffutils.test.parser_test.test_valid_line_count ... ok The second feature does not have a trailing semicolon (wormbase_gff2_alt is ... /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/create.py:733: UserWarning: It appears you have a gene feature in your GTF file. You may want to use the `disable_infer_genes=True` option to speed up database creation warnings.warn( ok gffutils.test.parser_test.test_attributes ... ok gffutils.test.test.TestGFFClass.featurecount_test ... ok gffutils.test.test.TestGFFClass.table_test ... ok gffutils.test.test.TestGFFClass.test_bed12 ... ok gffutils.test.test.TestGFFClass.test_parents_level_1 ... ok gffutils.test.test.TestGFFClass.test_parents_level_2 ... ok gffutils.test.test.TestGTFClass.featurecount_test ... 0 of 8 (0%) 1 of 8 (12%) 2 of 8 (25%) 3 of 8 (37%) 4 of 8 (50%) 5 of 8 (62%) 6 of 8 (75%) ok gffutils.test.test.TestGTFClass.table_test ... 0 of 8 (0%) 1 of 8 (12%) 2 of 8 (25%) 3 of 8 (37%) 4 of 8 (50%) 5 of 8 (62%) 6 of 8 (75%) ok gffutils.test.test.TestGTFClass.test_bed12 ... 0 of 8 (0%) 1 of 8 (12%) 2 of 8 (25%) 3 of 8 (37%) 4 of 8 (50%) 5 of 8 (62%) 6 of 8 (75%) ok gffutils.test.test.TestGTFClass.test_parents_level_1 ... 0 of 8 (0%) 1 of 8 (12%) 2 of 8 (25%) 3 of 8 (37%) 4 of 8 (50%) 5 of 8 (62%) 6 of 8 (75%) ok gffutils.test.test.TestGTFClass.test_parents_level_2 ... 0 of 8 (0%) 1 of 8 (12%) 2 of 8 (25%) 3 of 8 (37%) 4 of 8 (50%) 5 of 8 (62%) 6 of 8 (75%) ok gffutils.test.test.test_update ... 0 of 8 (0%) 1 of 8 (12%) 2 of 8 (25%) 3 of 8 (37%) 4 of 8 (50%) 5 of 8 (62%) 6 of 8 (75%) 0 of 8 (0%) 1 of 8 (12%) 2 of 8 (25%) 3 of 8 (37%) 4 of 8 (50%) 5 of 8 (62%) 6 of 8 (75%) ok Test on GFF files with random chromosome events. ... ok Test GFFWriter. ... ok Test creation of FeatureDB from iterator. ... ok Test sanitization of GFF. Should be merged with GFF cleaning ... ok gffutils.test.test.test_region(({'seqid': 'chr2L', 'start': 1, 'end': 2000000000.0, 'completely_within': True}, 27),) ... ok gffutils.test.test.test_region(({'region': 'chr2L', 'start': 0}, ),) ... ok gffutils.test.test.test_region(({'region': 'chr2L', 'end': 0}, ),) ... ok gffutils.test.test.test_region(({'region': 'chr2L', 'seqid': 0}, ),) ... ok gffutils.test.test.test_region(({'region': 'chr2L:7529-12500'}, 27),) ... ok gffutils.test.test.test_region(({'region': 'chr2L:7529-12500', 'strand': '.'}, 0),) ... ok gffutils.test.test.test_region(({'region': 'chr2L:7529-12500', 'strand': '+'}, 21),) ... ok gffutils.test.test.test_region(({'region': 'chr2L:7529-12500', 'strand': '-'}, 6),) ... ok gffutils.test.test.test_region(({'seqid': 'chr2L', 'start': 11500, 'featuretype': 'exon'}, 1),) ... ok gffutils.test.test.test_region(({'seqid': 'chr2L', 'start': 9500, 'featuretype': 'exon', 'strand': '+'}, 1),) ... ok gffutils.test.test.test_region(({'seqid': 'chr2L', 'start': 7529, 'end': 12500}, 27),) ... ok gffutils.test.test.test_region(({'seqid': 'chr2L', 'start': 7680}, 26),) ... ok gffutils.test.test.test_region(({'seqid': 'chr2L', 'start': 7680, 'completely_within': True}, 22),) ... ok gffutils.test.test.test_region(({'seqid': 'chr2L', 'end': 7680}, 5),) ... ok gffutils.test.test.test_region(({'seqid': 'chr2L', 'end': 7680, 'completely_within': True}, 1),) ... ok gffutils.test.test.test_region(({'region': 'chr2L'}, 27),) ... ok gffutils.test.test.test_region(({'seqid': 'chr2L'}, 27),) ... ok gffutils.test.test.test_region(({'region': 'nowhere'}, 0),) ... ok gffutils.test.test.test_nonascii ... ok gffutils.test.test.test_feature_merge ... ok gffutils.test.test.test_add_relation ... ok Test creation of FeatureDB from URL iterator. ... 127.0.0.1 - - [23/Nov/2022 10:52:41] "GET /gff_example1.gff3 HTTP/1.1" 200 - 127.0.0.1 - - [23/Nov/2022 10:52:41] "GET /gff_example1.gff3.gz HTTP/1.1" 200 - ok gffutils.test.test.test_empty_files ... ok gffutils.test.test.test_false_function ... ok gffutils.test.test.test_inspect ... ok gffutils.test.test.test_delete ... ok gffutils.test.test.test_iterator_update ... ok gffutils.test.test.test_tempfiles ... 0 of 8 (0%) 1 of 8 (12%) 2 of 8 (25%) 3 of 8 (37%) 4 of 8 (50%) 5 of 8 (62%) 6 of 8 (75%) 0 of 8 (0%) 1 of 8 (12%) 2 of 8 (25%) 3 of 8 (37%) 4 of 8 (50%) 5 of 8 (62%) 6 of 8 (75%) 0 of 8 (0%) 1 of 8 (12%) 2 of 8 (25%) 3 of 8 (37%) 4 of 8 (50%) 5 of 8 (62%) 6 of 8 (75%) 0 of 8 (0%) 1 of 8 (12%) 2 of 8 (25%) 3 of 8 (37%) 4 of 8 (50%) 5 of 8 (62%) 6 of 8 (75%) 0 of 8 (0%) 1 of 8 (12%) 0 of 8 (0%) 2 of 8 (25%) 1 of 8 (12%) 3 of 8 (37%) 2 of 8 (25%) 4 of 8 (50%) 3 of 8 (37%) 4 of 8 (50%) 5 of 8 (62%) 5 of 8 (62%) 6 of 8 (75%) 6 of 8 (75%) 0 of 8 (0%) 1 of 8 (12%) 2 of 8 (25%) 3 of 8 (37%) 4 of 8 (50%) 5 of 8 (62%) 6 of 8 (75%) 0 of 8 (0%) 1 of 8 (12%) 2 of 8 (25%) 3 of 8 (37%) 4 of 8 (50%) 5 of 8 (62%) 6 of 8 (75%) 0 of 8 (0%) 1 of 8 (12%) 0 of 8 (0%) 2 of 8 (25%) 3 of 8 (37%) 1 of 8 (12%) 4 of 8 (50%) 2 of 8 (25%) 5 of 8 (62%) 0 of 8 (0%) 0 of 8 (0%) 0 of 8 (0%) 3 of 8 (37%) 6 of 8 (75%) 4 of 8 (50%) 1 of 8 (12%) 1 of 8 (12%) 1 of 8 (12%) 2 of 8 (25%) 5 of 8 (62%) 2 of 8 (25%) 2 of 8 (25%) 3 of 8 (37%) 6 of 8 (75%) 3 of 8 (37%) 4 of 8 (50%) 3 of 8 (37%) 5 of 8 (62%) 4 of 8 (50%) 5 of 8 (62%) 6 of 8 (75%) 0 of 8 (0%) 4 of 8 (50%) 5 of 8 (62%) 6 of 8 (75%) 1 of 8 (12%) 6 of 8 (75%) 2 of 8 (25%) 3 of 8 (37%) 4 of 8 (50%) 5 of 8 (62%) 6 of 8 (75%) 0 of 8 (0%) 1 of 8 (12%) 2 of 8 (25%) 3 of 8 (37%) 4 of 8 (50%) 5 of 8 (62%) 6 of 8 (75%) 0 of 8 (0%) 1 of 8 (12%) 2 of 8 (25%) 3 of 8 (37%) 4 of 8 (50%) 5 of 8 (62%) 6 of 8 (75%) 0 of 8 (0%) 1 of 8 (12%) 2 of 8 (25%) 3 of 8 (37%) 4 of 8 (50%) 5 of 8 (62%) 6 of 8 (75%) 0 of 8 (0%) 1 of 8 (12%) 2 of 8 (25%) 3 of 8 (37%) 4 of 8 (50%) 5 of 8 (62%) 6 of 8 (75%) 0 of 8 (0%) 1 of 8 (12%) 2 of 8 (25%) 3 of 8 (37%) 0 of 8 (0%) 4 of 8 (50%) 0 of 8 (0%) 0 of 8 (0%) 1 of 8 (12%) 5 of 8 (62%) 0 of 8 (0%) 1 of 8 (12%) 1 of 8 (12%) 2 of 8 (25%) 6 of 8 (75%) 0 of 8 (0%) 2 of 8 (25%) 2 of 8 (25%) 3 of 8 (37%) 1 of 8 (12%) 3 of 8 (37%) 3 of 8 (37%) 1 of 8 (12%) 2 of 8 (25%) 3 of 8 (37%) 2 of 8 (25%) 0 of 8 (0%) 4 of 8 (50%) 4 of 8 (50%) 3 of 8 (37%) 4 of 8 (50%) 5 of 8 (62%) 5 of 8 (62%) 5 of 8 (62%) 4 of 8 (50%) 1 of 8 (12%) 6 of 8 (75%) 6 of 8 (75%) 6 of 8 (75%) 5 of 8 (62%) 2 of 8 (25%) 0 of 8 (0%) 3 of 8 (37%) 6 of 8 (75%) 4 of 8 (50%) 1 of 8 (12%) 5 of 8 (62%) 2 of 8 (25%) 6 of 8 (75%) 3 of 8 (37%) 4 of 8 (50%) 5 of 8 (62%) 6 of 8 (75%) 0 of 8 (0%) 1 of 8 (12%) 2 of 8 (25%) 3 of 8 (37%) 4 of 8 (50%) 5 of 8 (62%) 6 of 8 (75%) 0 of 8 (0%) 1 of 8 (12%) 2 of 8 (25%) 3 of 8 (37%) 4 of 8 (50%) 5 of 8 (62%) 6 of 8 (75%) 0 of 8 (0%) 1 of 8 (12%) 2 of 8 (25%) 3 of 8 (37%) 4 of 8 (50%) 5 of 8 (62%) 6 of 8 (75%) 0 of 8 (0%) 1 of 8 (12%) 2 of 8 (25%) 3 of 8 (37%) 4 of 8 (50%) 5 of 8 (62%) 6 of 8 (75%) 0 of 8 (0%) 1 of 8 (12%) 2 of 8 (25%) 3 of 8 (37%) 4 of 8 (50%) 5 of 8 (62%) 6 of 8 (75%) 4 of 8 (50%) 5 of 8 (62%) 6 of 8 (75%) 0 of 8 (0%) 0 of 8 (0%) 0 of 8 (0%) 1 of 8 (12%) 0 of 8 (0%) 0 of 8 (0%) 1 of 8 (12%) 1 of 8 (12%) 2 of 8 (25%) 2 of 8 (25%) 2 of 8 (25%) 1 of 8 (12%) 3 of 8 (37%) 1 of 8 (12%) 0 of 8 (0%) 3 of 8 (37%) 4 of 8 (50%) 2 of 8 (25%) 3 of 8 (37%) 2 of 8 (25%) 5 of 8 (62%) 3 of 8 (37%) 4 of 8 (50%) 3 of 8 (37%) 4 of 8 (50%) 1 of 8 (12%) 6 of 8 (75%) 4 of 8 (50%) 4 of 8 (50%) 5 of 8 (62%) 5 of 8 (62%) 2 of 8 (25%) 5 of 8 (62%) 5 of 8 (62%) 6 of 8 (75%) 6 of 8 (75%) 3 of 8 (37%) 6 of 8 (75%) 6 of 8 (75%) 4 of 8 (50%) 5 of 8 (62%) 6 of 8 (75%) 0 of 8 (0%) 1 of 8 (12%) 0 of 8 (0%) 2 of 8 (25%) 1 of 8 (12%) 3 of 8 (37%) 2 of 8 (25%) 4 of 8 (50%) 3 of 8 (37%) 5 of 8 (62%) 4 of 8 (50%) 6 of 8 (75%) 0 of 8 (0%) 5 of 8 (62%) 6 of 8 (75%) 1 of 8 (12%) 2 of 8 (25%) 3 of 8 (37%) 4 of 8 (50%) 5 of 8 (62%) 0 of 8 (0%) 6 of 8 (75%) 1 of 8 (12%) 2 of 8 (25%) 3 of 8 (37%) 4 of 8 (50%) 5 of 8 (62%) 6 of 8 (75%) 0 of 8 (0%) 1 of 8 (12%) 2 of 8 (25%) 3 of 8 (37%) 4 of 8 (50%) 0 of 8 (0%) 5 of 8 (62%) 1 of 8 (12%) 6 of 8 (75%) 2 of 8 (25%) 3 of 8 (37%) 4 of 8 (50%) 5 of 8 (62%) 6 of 8 (75%) 0 of 8 (0%) 0 of 8 (0%) 0 of 8 (0%) 1 of 8 (12%) 0 of 8 (0%) 0 of 8 (0%) 0 of 8 (0%) 1 of 8 (12%) 2 of 8 (25%) 3 of 8 (37%) 2 of 8 (25%) 1 of 8 (12%) 1 of 8 (12%) 0 of 8 (0%) 4 of 8 (50%) 2 of 8 (25%) 2 of 8 (25%) 3 of 8 (37%) 5 of 8 (62%) 0 of 8 (0%) 3 of 8 (37%) 3 of 8 (37%) 1 of 8 (12%) 4 of 8 (50%) 6 of 8 (75%) 4 of 8 (50%) 4 of 8 (50%) 1 of 8 (12%) 2 of 8 (25%) 5 of 8 (62%) 5 of 8 (62%) 5 of 8 (62%) 2 of 8 (25%) 3 of 8 (37%) 6 of 8 (75%) 6 of 8 (75%) 6 of 8 (75%) 0 of 8 (0%) 4 of 8 (50%) 3 of 8 (37%) 5 of 8 (62%) 4 of 8 (50%) 1 of 8 (12%) 0 of 8 (0%) 6 of 8 (75%) 5 of 8 (62%) 2 of 8 (25%) 6 of 8 (75%) 3 of 8 (37%) 1 of 8 (12%) 4 of 8 (50%) 2 of 8 (25%) 3 of 8 (37%) 5 of 8 (62%) 4 of 8 (50%) 6 of 8 (75%) 0 of 8 (0%) 5 of 8 (62%) 6 of 8 (75%) 1 of 8 (12%) 2 of 8 (25%) 3 of 8 (37%) 0 of 8 (0%) 4 of 8 (50%) 5 of 8 (62%) 1 of 8 (12%) 6 of 8 (75%) 2 of 8 (25%) 3 of 8 (37%) 4 of 8 (50%) 5 of 8 (62%) 0 of 8 (0%) 6 of 8 (75%) 1 of 8 (12%) 2 of 8 (25%) 3 of 8 (37%) 4 of 8 (50%) 5 of 8 (62%) 6 of 8 (75%) 1 of 8 (12%) 2 of 8 (25%) 3 of 8 (37%) 4 of 8 (50%) 5 of 8 (62%) 0 of 8 (0%) 6 of 8 (75%) 1 of 8 (12%) 2 of 8 (25%) 3 of 8 (37%) 4 of 8 (50%) 5 of 8 (62%) 6 of 8 (75%) 0 of 8 (0%) 1 of 8 (12%) 2 of 8 (25%) 3 of 8 (37%) 4 of 8 (50%) 5 of 8 (62%) 6 of 8 (75%) 1 of 8 (12%) 2 of 8 (25%) 3 of 8 (37%) 4 of 8 (50%) 5 of 8 (62%) 6 of 8 (75%) 0 of 8 (0%) 1 of 8 (12%) 0 of 8 (0%) 2 of 8 (25%) 1 of 8 (12%) 3 of 8 (37%) 0 of 8 (0%) 4 of 8 (50%) 2 of 8 (25%) 1 of 8 (12%) 5 of 8 (62%) 3 of 8 (37%) 2 of 8 (25%) 6 of 8 (75%) 4 of 8 (50%) 0 of 8 (0%) 3 of 8 (37%) 5 of 8 (62%) 1 of 8 (12%) 4 of 8 (50%) 6 of 8 (75%) 0 of 8 (0%) 0 of 8 (0%) 5 of 8 (62%) 2 of 8 (25%) 1 of 8 (12%) 6 of 8 (75%) 1 of 8 (12%) 3 of 8 (37%) 2 of 8 (25%) 2 of 8 (25%) 4 of 8 (50%) 0 of 8 (0%) 3 of 8 (37%) 3 of 8 (37%) 5 of 8 (62%) 1 of 8 (12%) 4 of 8 (50%) 4 of 8 (50%) 6 of 8 (75%) 2 of 8 (25%) 5 of 8 (62%) 5 of 8 (62%) 0 of 8 (0%) 3 of 8 (37%) 6 of 8 (75%) 6 of 8 (75%) 1 of 8 (12%) 4 of 8 (50%) 0 of 8 (0%) 2 of 8 (25%) 5 of 8 (62%) 3 of 8 (37%) 6 of 8 (75%) 1 of 8 (12%) 4 of 8 (50%) 2 of 8 (25%) 0 of 8 (0%) 5 of 8 (62%) 3 of 8 (37%) 1 of 8 (12%) 6 of 8 (75%) 4 of 8 (50%) 2 of 8 (25%) 0 of 8 (0%) 5 of 8 (62%) 3 of 8 (37%) 0 of 8 (0%) 1 of 8 (12%) 6 of 8 (75%) 4 of 8 (50%) 2 of 8 (25%) 1 of 8 (12%) 5 of 8 (62%) 3 of 8 (37%) 2 of 8 (25%) 4 of 8 (50%) 6 of 8 (75%) 3 of 8 (37%) 5 of 8 (62%) 6 of 8 (75%) 4 of 8 (50%) 5 of 8 (62%) 6 of 8 (75%) 0 of 8 (0%) 1 of 8 (12%) 2 of 8 (25%) 3 of 8 (37%) 4 of 8 (50%) 5 of 8 (62%) 6 of 8 (75%) 0 of 8 (0%) 1 of 8 (12%) 0 of 8 (0%) 2 of 8 (25%) 1 of 8 (12%) 0 of 8 (0%) 3 of 8 (37%) 2 of 8 (25%) 1 of 8 (12%) 4 of 8 (50%) 3 of 8 (37%) 2 of 8 (25%) 5 of 8 (62%) 4 of 8 (50%) 3 of 8 (37%) 6 of 8 (75%) 5 of 8 (62%) 4 of 8 (50%) 0 of 8 (0%) 0 of 8 (0%) 6 of 8 (75%) 5 of 8 (62%) 1 of 8 (12%) 6 of 8 (75%) 1 of 8 (12%) 2 of 8 (25%) 2 of 8 (25%) 3 of 8 (37%) 3 of 8 (37%) 4 of 8 (50%) 4 of 8 (50%) 0 of 8 (0%) 5 of 8 (62%) 0 of 8 (0%) 5 of 8 (62%) 6 of 8 (75%) 1 of 8 (12%) 0 of 8 (0%) 1 of 8 (12%) 6 of 8 (75%) 0 of 8 (0%) 2 of 8 (25%) 2 of 8 (25%) 1 of 8 (12%) 3 of 8 (37%) 1 of 8 (12%) 3 of 8 (37%) 2 of 8 (25%) 2 of 8 (25%) 4 of 8 (50%) 4 of 8 (50%) 3 of 8 (37%) 5 of 8 (62%) 3 of 8 (37%) 5 of 8 (62%) 4 of 8 (50%) 4 of 8 (50%) 6 of 8 (75%) 6 of 8 (75%) 5 of 8 (62%) 0 of 8 (0%) 5 of 8 (62%) 6 of 8 (75%) 6 of 8 (75%) 1 of 8 (12%) 2 of 8 (25%) 0 of 8 (0%) 3 of 8 (37%) 1 of 8 (12%) 4 of 8 (50%) 2 of 8 (25%) 5 of 8 (62%) 3 of 8 (37%) 6 of 8 (75%) 4 of 8 (50%) 5 of 8 (62%) 6 of 8 (75%) 0 of 8 (0%) 1 of 8 (12%) 2 of 8 (25%) 0 of 8 (0%) 3 of 8 (37%) 1 of 8 (12%) 4 of 8 (50%) 2 of 8 (25%) 5 of 8 (62%) 3 of 8 (37%) 6 of 8 (75%) 4 of 8 (50%) 5 of 8 (62%) 6 of 8 (75%) 0 of 8 (0%) 1 of 8 (12%) 2 of 8 (25%) 3 of 8 (37%) 4 of 8 (50%) 5 of 8 (62%) 6 of 8 (75%) 0 of 8 (0%) 1 of 8 (12%) 0 of 8 (0%) 2 of 8 (25%) 3 of 8 (37%) 1 of 8 (12%) 4 of 8 (50%) 2 of 8 (25%) 5 of 8 (62%) 6 of 8 (75%) 3 of 8 (37%) 4 of 8 (50%) 0 of 8 (0%) 0 of 8 (0%) 5 of 8 (62%) 1 of 8 (12%) 1 of 8 (12%) 6 of 8 (75%) 0 of 8 (0%) 2 of 8 (25%) 2 of 8 (25%) 1 of 8 (12%) 3 of 8 (37%) 3 of 8 (37%) 2 of 8 (25%) 4 of 8 (50%) 4 of 8 (50%) 3 of 8 (37%) 4 of 8 (50%) 5 of 8 (62%) 5 of 8 (62%) 5 of 8 (62%) 6 of 8 (75%) 6 of 8 (75%) 6 of 8 (75%) 0 of 8 (0%) 1 of 8 (12%) 2 of 8 (25%) 3 of 8 (37%) 4 of 8 (50%) 5 of 8 (62%) 6 of 8 (75%) 0 of 8 (0%) 1 of 8 (12%) 2 of 8 (25%) 3 of 8 (37%) 4 of 8 (50%) 0 of 8 (0%) 5 of 8 (62%) 1 of 8 (12%) 6 of 8 (75%) 2 of 8 (25%) 3 of 8 (37%) 4 of 8 (50%) 5 of 8 (62%) 6 of 8 (75%) 0 of 8 (0%) 1 of 8 (12%) 2 of 8 (25%) 3 of 8 (37%) 4 of 8 (50%) 5 of 8 (62%) 6 of 8 (75%) 0 of 8 (0%) 0 of 8 (0%) 1 of 8 (12%) 2 of 8 (25%) 1 of 8 (12%) 3 of 8 (37%) 2 of 8 (25%) 4 of 8 (50%) 3 of 8 (37%) 5 of 8 (62%) 4 of 8 (50%) 6 of 8 (75%) 5 of 8 (62%) 6 of 8 (75%) 0 of 8 (0%) 1 of 8 (12%) 2 of 8 (25%) 0 of 8 (0%) 3 of 8 (37%) 4 of 8 (50%) 1 of 8 (12%) 0 of 8 (0%) 5 of 8 (62%) 2 of 8 (25%) 1 of 8 (12%) 6 of 8 (75%) 3 of 8 (37%) 0 of 8 (0%) 2 of 8 (25%) 4 of 8 (50%) 3 of 8 (37%) 1 of 8 (12%) 5 of 8 (62%) 4 of 8 (50%) 2 of 8 (25%) 6 of 8 (75%) 3 of 8 (37%) 5 of 8 (62%) 4 of 8 (50%) 6 of 8 (75%) 0 of 8 (0%) 5 of 8 (62%) 6 of 8 (75%) 1 of 8 (12%) 2 of 8 (25%) 3 of 8 (37%) 4 of 8 (50%) 5 of 8 (62%) 6 of 8 (75%) 0 of 8 (0%) 1 of 8 (12%) 2 of 8 (25%) 3 of 8 (37%) 4 of 8 (50%) 5 of 8 (62%) 6 of 8 (75%) 0 of 8 (0%) 0 of 8 (0%) 1 of 8 (12%) 1 of 8 (12%) 2 of 8 (25%) 2 of 8 (25%) 3 of 8 (37%) 3 of 8 (37%) 4 of 8 (50%) 4 of 8 (50%) 5 of 8 (62%) 6 of 8 (75%) 5 of 8 (62%) 6 of 8 (75%) ok tests the new semantics for disabling gene/transcript inference ... 0 of 8 (0%) 1 of 8 (12%) 2 of 8 (25%) 3 of 8 (37%) 4 of 8 (50%) 5 of 8 (62%) 6 of 8 (75%) /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/create.py:733: UserWarning: It appears you have a gene feature in your GTF file. You may want to use the `disable_infer_genes=True` option to speed up database creation warnings.warn( 0 of 4 (0%) 1 of 4 (25%) 2 of 4 (50%) /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/create.py:724: UserWarning: It appears you have a transcript feature in your GTF file. You may want to use the `disable_infer_transcripts=True` option to speed up database creation warnings.warn( 0 of 8 (0%) 1 of 8 (12%) 2 of 8 (25%) 3 of 8 (37%) 4 of 8 (50%) 5 of 8 (62%) 6 of 8 (75%) 7 of 8 (87%) ok gffutils.test.test.test_deprecation_handler ... ok gffutils.test.test.test_nonsense_kwarg ... ok gffutils.test.test.test_infer_gene_extent ... ok gffutils.test.test.test_issue_79 ... 0 of 2 (0%) 1 of 2 (50%) ok gffutils.test.test.test_for_analyze ... 0 of 8 (0%) 1 of 8 (12%) 2 of 8 (25%) 3 of 8 (37%) 4 of 8 (50%) 5 of 8 (62%) 6 of 8 (75%) ok gffutils.test.test.test_issue_82 ... ok gffutils.test.test.test_sequence ... ok gffutils.test.test.test_issue_85 ... ok gffutils.test.test.test_unquoting ... ok gffutils.test.test.test_unreasonable_unquoting ... ok gffutils.test.test.test_unquoting_iter ... ok gffutils.test.test.test_db_unquoting ... ok gffutils.test.test.test_issue_107 ... ok gffutils.test.test.test_issue_119 ... ok gffutils.test.test.test_pr_131 ... ok gffutils.test.test.test_pr_133 ... ok gffutils.test.test.test_pr_139 ... ok gffutils.test.test.test_pr_144 ... ok gffutils.test.test.test_issue_105 ... ok Feature -> SeqFeature -> Feature should be invariant. ... ok test_adjacent_len1 (gffutils.test.test_merge.TestMerge) ... ok test_any_overlap (gffutils.test.test_merge.TestMerge) ... ok test_defaults (gffutils.test.test_merge.TestMerge) ... ok test_end_overlap (gffutils.test.test_merge.TestMerge) ... ok test_no_overlap (gffutils.test.test_merge.TestMerge) ... ok test_none (gffutils.test.test_merge.TestMerge) ... ok test_one (gffutils.test.test_merge.TestMerge) ... ok test_overlap (gffutils.test.test_merge.TestMerge) ... ok test_perfect_overlap (gffutils.test.test_merge.TestMerge) ... ok test_defaults (gffutils.test.test_merge_all.TestMerge_all) ... ok test_empty (gffutils.test.test_merge_all.TestMerge_all) ... ok test_exclude_components (gffutils.test.test_merge_all.TestMerge_all) ... ok test_merge_groups (gffutils.test.test_merge_all.TestMerge_all) ... ok test_no_overlap (gffutils.test.test_merge_all.TestMerge_all) ... ok test_one (gffutils.test.test_merge_all.TestMerge_all) ... ok ---------------------------------------------------------------------- Ran 113 tests in 1.910s OK I: pybuild pybuild:310: find . -name tmp.db -delete create-stamp debian/debhelper-build-stamp fakeroot debian/rules binary dh binary --with python3 --buildsystem=pybuild 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/python-gffutils-0.10.1/debian/python3-gffutils running install running build running build_py package init file 'gffutils/scripts/__init__.py' not found (or not a regular file) package init file 'gffutils/test/data/__init__.py' not found (or not a regular file) running build_scripts running install_lib creating /build/python-gffutils-0.10.1/debian/python3-gffutils/usr creating /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib creating /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9 creating /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages creating /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils creating /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/__pycache__ copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/__pycache__/pybedtools_integration.cpython-39.pyc -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/__pycache__ copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/__pycache__/inspect.cpython-39.pyc -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/__pycache__ copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/__pycache__/convert.cpython-39.pyc -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/__pycache__ copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/__pycache__/biopython_integration.cpython-39.pyc -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/__pycache__ copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/__pycache__/iterators.cpython-39.pyc -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/__pycache__ copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/__pycache__/merge_criteria.cpython-39.pyc -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/__pycache__ copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/__pycache__/interface.cpython-39.pyc -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/__pycache__ copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/__pycache__/feature.cpython-39.pyc -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/__pycache__ copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/__pycache__/attributes.cpython-39.pyc -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/__pycache__ copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/__pycache__/exceptions.cpython-39.pyc -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/__pycache__ copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/__pycache__/parser.cpython-39.pyc -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/__pycache__ copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/__pycache__/gffwriter.cpython-39.pyc -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/__pycache__ copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/__pycache__/helpers.cpython-39.pyc -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/__pycache__ copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/__pycache__/bins.cpython-39.pyc -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/__pycache__ copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/__pycache__/version.cpython-39.pyc -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/__pycache__ copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/__pycache__/constants.cpython-39.pyc -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/__pycache__ copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/__pycache__/create.cpython-39.pyc -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/__pycache__ copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/__pycache__/__init__.cpython-39.pyc -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/__pycache__ creating /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/test creating /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/test/__pycache__ copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/__pycache__/test_merge_all.cpython-39.pyc -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/test/__pycache__ copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/__pycache__/test_merge.cpython-39.pyc -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/test/__pycache__ copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/__pycache__/test_biopython_integration.cpython-39.pyc -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/test/__pycache__ copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/__pycache__/test.cpython-39.pyc -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/test/__pycache__ copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/__pycache__/synth_test_base.cpython-39.pyc -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/test/__pycache__ copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/__pycache__/performance_test.cpython-39.pyc -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/test/__pycache__ copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/__pycache__/parser_test.cpython-39.pyc -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/test/__pycache__ copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/__pycache__/helpers_test.cpython-39.pyc -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/test/__pycache__ copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/__pycache__/feature_test.cpython-39.pyc -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/test/__pycache__ copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/__pycache__/attr_test_cases.cpython-39.pyc -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/test/__pycache__ copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/__pycache__/expected.cpython-39.pyc -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/test/__pycache__ copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/__pycache__/__init__.cpython-39.pyc -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/test/__pycache__ creating /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/test/data copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/data/dm6-chr2L.fa.fai -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/test/data copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/data/F3-unique-3.v2.gff -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/test/data copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/data/FBgn0031208.gff -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/test/data copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/data/FBgn0031208.gtf -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/test/data copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/data/Saccharomyces_cerevisiae.R64-1-1.83.5000_gene_ids.txt -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/test/data copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/data/Saccharomyces_cerevisiae.R64-1-1.83.5000_transcript_ids.txt -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/test/data copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/data/Saccharomyces_cerevisiae.R64-1-1.83.chromsizes.txt -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/test/data copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/data/c_elegans_WS199_ann_gff.txt -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/test/data copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/data/c_elegans_WS199_dna_shortened.fa -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/test/data copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/data/c_elegans_WS199_shortened_gff.txt -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/test/data copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/data/dm6-chr2L.fa -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/test/data copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/data/dmel-all-no-analysis-r5.49_50k_lines.gff -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/test/data copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/data/download-large-annotation-files.sh -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/test/data copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/data/ensembl_gtf.txt -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/test/data copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/data/gencode-v19.gtf -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/test/data copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/data/gencode.vM8.5000_gene_ids.txt -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/test/data copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/data/gencode.vM8.5000_transcript_ids.txt -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/test/data copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/data/gencode.vM8.chromsizes.txt -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/test/data copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/data/gff_example1.gff3 -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/test/data copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/data/gff_example1.gff3.gz -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/test/data copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/data/glimmer_nokeyval.gff3 -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/test/data copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/data/hybrid1.gff3 -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/test/data copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/data/intro_docs_example.gff -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/test/data copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/data/jgi_gff2.txt -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/test/data copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/data/keep-order-test.gtf -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/test/data copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/data/keyval_sep_in_attrs.gff -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/test/data copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/data/mouse_extra_comma.gff3 -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/test/data copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/data/ncbi_gff3.txt -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/test/data copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/data/nonascii -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/test/data copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/data/random-chr.gff -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/test/data copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/data/synthetic.gff3 -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/test/data copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/data/unsanitized.gff -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/test/data copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/data/wormbase_gff2.txt -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/test/data copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/data/wormbase_gff2_alt.txt -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/test/data copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/__init__.py -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/test copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/attr_test_cases.py -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/test copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/expected.py -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/test copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/feature_test.py -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/test copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/helpers_test.py -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/test copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/parser_test.py -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/test copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/performance_test.py -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/test copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/synth_test_base.py -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/test copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/test_biopython_integration.py -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/test copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/test_merge.py -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/test copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/test_merge_all.py -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/test copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/test/test.py -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/test creating /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/scripts copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/scripts/gffutils-flybase-convert.py -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/scripts copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/__init__.py -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/attributes.py -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/bins.py -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/biopython_integration.py -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/constants.py -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/convert.py -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/create.py -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/exceptions.py -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/feature.py -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/gffwriter.py -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/helpers.py -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/inspect.py -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/interface.py -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/merge_criteria.py -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/parser.py -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/pybedtools_integration.py -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/version.py -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils copying /build/python-gffutils-0.10.1/.pybuild/cpython3_3.9_gffutils/build/gffutils/iterators.py -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils byte-compiling /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/test/__init__.py to __init__.cpython-39.pyc byte-compiling /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/test/attr_test_cases.py to attr_test_cases.cpython-39.pyc byte-compiling /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/test/expected.py to expected.cpython-39.pyc byte-compiling /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/test/feature_test.py to feature_test.cpython-39.pyc byte-compiling /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/test/helpers_test.py to helpers_test.cpython-39.pyc byte-compiling /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/test/parser_test.py to parser_test.cpython-39.pyc byte-compiling /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/test/performance_test.py to performance_test.cpython-39.pyc byte-compiling /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/test/synth_test_base.py to synth_test_base.cpython-39.pyc byte-compiling /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/test/test_biopython_integration.py to test_biopython_integration.cpython-39.pyc byte-compiling /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/test/test_merge.py to test_merge.cpython-39.pyc byte-compiling /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/test/test_merge_all.py to test_merge_all.cpython-39.pyc byte-compiling /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/test/test.py to test.cpython-39.pyc byte-compiling /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/scripts/gffutils-flybase-convert.py to gffutils-flybase-convert.cpython-39.pyc byte-compiling /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/__init__.py to __init__.cpython-39.pyc byte-compiling /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/attributes.py to attributes.cpython-39.pyc byte-compiling /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/bins.py to bins.cpython-39.pyc byte-compiling /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/biopython_integration.py to biopython_integration.cpython-39.pyc byte-compiling /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/constants.py to constants.cpython-39.pyc byte-compiling /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/convert.py to convert.cpython-39.pyc byte-compiling /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/create.py to create.cpython-39.pyc byte-compiling /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/exceptions.py to exceptions.cpython-39.pyc byte-compiling /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/feature.py to feature.cpython-39.pyc byte-compiling /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/gffwriter.py to gffwriter.cpython-39.pyc byte-compiling /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/helpers.py to helpers.cpython-39.pyc byte-compiling /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/inspect.py to inspect.cpython-39.pyc byte-compiling /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/interface.py to interface.cpython-39.pyc byte-compiling /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/merge_criteria.py to merge_criteria.cpython-39.pyc byte-compiling /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/parser.py to parser.cpython-39.pyc byte-compiling /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/pybedtools_integration.py to pybedtools_integration.cpython-39.pyc byte-compiling /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/version.py to version.cpython-39.pyc byte-compiling /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils/iterators.py to iterators.cpython-39.pyc running install_egg_info running egg_info writing gffutils.egg-info/PKG-INFO writing dependency_links to gffutils.egg-info/dependency_links.txt writing requirements to gffutils.egg-info/requires.txt writing top-level names to gffutils.egg-info/top_level.txt reading manifest file 'gffutils.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' warning: no files found matching '*.rst' under directory 'docs/source' warning: no files found matching '*.py' under directory 'docs/source' warning: no files found matching '*' under directory 'docs/source/images' warning: no files found matching 'docs/Makefile' warning: no files found matching 'docs/make.bat' warning: no files found matching 'gffutils/test/data/__init__.py' warning: no files found matching 'gffutils/test/data/t.py' writing manifest file 'gffutils.egg-info/SOURCES.txt' Copying gffutils.egg-info to /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/lib/python3.9/dist-packages/gffutils-0.10.1.egg-info Skipping SOURCES.txt running install_scripts creating /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/bin copying build/scripts-3.9/gffutils-cli -> /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/bin changing mode of /build/python-gffutils-0.10.1/debian/python3-gffutils/usr/bin/gffutils-cli to 755 dh_installdocs -O--buildsystem=pybuild dh_installchangelogs -O--buildsystem=pybuild dh_installman -O--buildsystem=pybuild dh_python3 -O--buildsystem=pybuild dh_installinit -O--buildsystem=pybuild dh_installsystemduser -O--buildsystem=pybuild dh_lintian -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 dh_md5sums -O--buildsystem=pybuild dh_builddeb -O--buildsystem=pybuild dpkg-deb: building package 'python3-gffutils' in '../python3-gffutils_0.10.1-2_all.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary >../python-gffutils_0.10.1-2_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) dpkg-genchanges: info: not including original source code in upload I: copying local configuration I: user script /srv/workspace/pbuilder/4158009/tmp/hooks/B01_cleanup starting I: user script /srv/workspace/pbuilder/4158009/tmp/hooks/B01_cleanup finished I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env I: removing directory /srv/workspace/pbuilder/4158009 and its subdirectories I: Current time: Wed Nov 23 10:52:55 +14 2022 I: pbuilder-time-stamp: 1669150375