I: pbuilder: network access will be disabled during build
I: Current time: Mon May 1 02:06:03 -12 2023
I: pbuilder-time-stamp: 1682949963
I: Building the build Environment
I: extracting base tarball [/var/cache/pbuilder/bookworm-reproducible-base.tgz]
I: copying local configuration
W: --override-config is not set; not updating apt.conf Read the manpage for details.
I: mounting /proc filesystem
I: mounting /sys filesystem
I: creating /{dev,run}/shm
I: mounting /dev/pts filesystem
I: redirecting /dev/ptmx to /dev/pts/ptmx
I: policy-rc.d already exists
I: Copying source file
I: copying [python-pbcore_2.1.2+dfsg-5.dsc]
I: copying [./python-pbcore_2.1.2+dfsg.orig.tar.xz]
I: copying [./python-pbcore_2.1.2+dfsg-5.debian.tar.xz]
I: Extracting source
gpgv: Signature made Sat Jan 7 03:59:55 2023 -12
gpgv: using RSA key 8F91B227C7D6F2B1948C8236793CF67E8F0D11DA
gpgv: issuer "emollier@debian.org"
gpgv: Can't check signature: No public key
dpkg-source: warning: cannot verify inline signature for ./python-pbcore_2.1.2+dfsg-5.dsc: no acceptable signature found
dpkg-source: info: extracting python-pbcore in python-pbcore-2.1.2+dfsg
dpkg-source: info: unpacking python-pbcore_2.1.2+dfsg.orig.tar.xz
dpkg-source: info: unpacking python-pbcore_2.1.2+dfsg-5.debian.tar.xz
dpkg-source: info: using patch list from debian/patches/series
dpkg-source: info: applying doc-theme.patch
dpkg-source: info: applying exclude_test_missing_data.patch
dpkg-source: info: applying b24746790c7105212e45dc2f40115d231bd8baae.patch
dpkg-source: info: applying seek-curdir-for-xml.patch
dpkg-source: info: applying numpy_1.24.patch
I: Not using root during the build.
I: Installing the build-deps
I: user script /srv/workspace/pbuilder/3095761/tmp/hooks/D02_print_environment starting
I: set
BUILDDIR='/build'
BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other'
BUILDUSERNAME='pbuilder1'
BUILD_ARCH='amd64'
DEBIAN_FRONTEND='noninteractive'
DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=15'
DISTRIBUTION='bookworm'
HOME='/root'
HOST_ARCH='amd64'
IFS='
'
INVOCATION_ID='670c570f258f40aca927e3fc15ad72a7'
LANG='C'
LANGUAGE='en_US:en'
LC_ALL='C'
MAIL='/var/mail/root'
OPTIND='1'
PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games'
PBCURRENTCOMMANDLINEOPERATION='build'
PBUILDER_OPERATION='build'
PBUILDER_PKGDATADIR='/usr/share/pbuilder'
PBUILDER_PKGLIBDIR='/usr/lib/pbuilder'
PBUILDER_SYSCONFDIR='/etc'
PPID='3095761'
PS1='# '
PS2='> '
PS4='+ '
PWD='/'
SHELL='/bin/bash'
SHLVL='2'
SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.gohQ7iCB/pbuilderrc_ujMa --distribution bookworm --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bookworm-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.gohQ7iCB/b1 --logfile b1/build.log python-pbcore_2.1.2+dfsg-5.dsc'
SUDO_GID='111'
SUDO_UID='106'
SUDO_USER='jenkins'
TERM='unknown'
TZ='/usr/share/zoneinfo/Etc/GMT+12'
USER='root'
_='/usr/bin/systemd-run'
http_proxy='http://78.137.99.97:3128'
I: uname -a
Linux ionos11-amd64 5.10.0-22-amd64 #1 SMP Debian 5.10.178-3 (2023-04-22) x86_64 GNU/Linux
I: ls -l /bin
total 5632
-rwxr-xr-x 1 root root 1265648 Apr 23 09:23 bash
-rwxr-xr-x 3 root root 39224 Sep 18 2022 bunzip2
-rwxr-xr-x 3 root root 39224 Sep 18 2022 bzcat
lrwxrwxrwx 1 root root 6 Sep 18 2022 bzcmp -> bzdiff
-rwxr-xr-x 1 root root 2225 Sep 18 2022 bzdiff
lrwxrwxrwx 1 root root 6 Sep 18 2022 bzegrep -> bzgrep
-rwxr-xr-x 1 root root 4893 Nov 27 2021 bzexe
lrwxrwxrwx 1 root root 6 Sep 18 2022 bzfgrep -> bzgrep
-rwxr-xr-x 1 root root 3775 Sep 18 2022 bzgrep
-rwxr-xr-x 3 root root 39224 Sep 18 2022 bzip2
-rwxr-xr-x 1 root root 14568 Sep 18 2022 bzip2recover
lrwxrwxrwx 1 root root 6 Sep 18 2022 bzless -> bzmore
-rwxr-xr-x 1 root root 1297 Sep 18 2022 bzmore
-rwxr-xr-x 1 root root 44016 Sep 20 2022 cat
-rwxr-xr-x 1 root root 68656 Sep 20 2022 chgrp
-rwxr-xr-x 1 root root 64496 Sep 20 2022 chmod
-rwxr-xr-x 1 root root 72752 Sep 20 2022 chown
-rwxr-xr-x 1 root root 151152 Sep 20 2022 cp
-rwxr-xr-x 1 root root 125640 Jan 5 01:20 dash
-rwxr-xr-x 1 root root 121904 Sep 20 2022 date
-rwxr-xr-x 1 root root 89240 Sep 20 2022 dd
-rwxr-xr-x 1 root root 102200 Sep 20 2022 df
-rwxr-xr-x 1 root root 151344 Sep 20 2022 dir
-rwxr-xr-x 1 root root 88656 Mar 22 22:02 dmesg
lrwxrwxrwx 1 root root 8 Dec 19 01:33 dnsdomainname -> hostname
lrwxrwxrwx 1 root root 8 Dec 19 01:33 domainname -> hostname
-rwxr-xr-x 1 root root 43856 Sep 20 2022 echo
-rwxr-xr-x 1 root root 41 Jan 24 02:43 egrep
-rwxr-xr-x 1 root root 35664 Sep 20 2022 false
-rwxr-xr-x 1 root root 41 Jan 24 02:43 fgrep
-rwxr-xr-x 1 root root 85600 Mar 22 22:02 findmnt
-rwsr-xr-x 1 root root 35128 Mar 22 20:35 fusermount
-rwxr-xr-x 1 root root 203152 Jan 24 02:43 grep
-rwxr-xr-x 2 root root 2346 Apr 9 2022 gunzip
-rwxr-xr-x 1 root root 6447 Apr 9 2022 gzexe
-rwxr-xr-x 1 root root 98136 Apr 9 2022 gzip
-rwxr-xr-x 1 root root 22680 Dec 19 01:33 hostname
-rwxr-xr-x 1 root root 72824 Sep 20 2022 ln
-rwxr-xr-x 1 root root 53024 Mar 23 00:40 login
-rwxr-xr-x 1 root root 151344 Sep 20 2022 ls
-rwxr-xr-x 1 root root 207168 Mar 22 22:02 lsblk
-rwxr-xr-x 1 root root 97552 Sep 20 2022 mkdir
-rwxr-xr-x 1 root root 72912 Sep 20 2022 mknod
-rwxr-xr-x 1 root root 43952 Sep 20 2022 mktemp
-rwxr-xr-x 1 root root 59712 Mar 22 22:02 more
-rwsr-xr-x 1 root root 59704 Mar 22 22:02 mount
-rwxr-xr-x 1 root root 18744 Mar 22 22:02 mountpoint
-rwxr-xr-x 1 root root 142968 Sep 20 2022 mv
lrwxrwxrwx 1 root root 8 Dec 19 01:33 nisdomainname -> hostname
lrwxrwxrwx 1 root root 14 Apr 2 18:25 pidof -> /sbin/killall5
-rwxr-xr-x 1 root root 43952 Sep 20 2022 pwd
lrwxrwxrwx 1 root root 4 Apr 23 09:23 rbash -> bash
-rwxr-xr-x 1 root root 52112 Sep 20 2022 readlink
-rwxr-xr-x 1 root root 72752 Sep 20 2022 rm
-rwxr-xr-x 1 root root 56240 Sep 20 2022 rmdir
-rwxr-xr-x 1 root root 27560 Nov 2 04:31 run-parts
-rwxr-xr-x 1 root root 126424 Jan 5 07:55 sed
lrwxrwxrwx 1 root root 4 Jan 5 01:20 sh -> dash
-rwxr-xr-x 1 root root 43888 Sep 20 2022 sleep
-rwxr-xr-x 1 root root 85008 Sep 20 2022 stty
-rwsr-xr-x 1 root root 72000 Mar 22 22:02 su
-rwxr-xr-x 1 root root 39824 Sep 20 2022 sync
-rwxr-xr-x 1 root root 531984 Apr 6 02:25 tar
-rwxr-xr-x 1 root root 14520 Nov 2 04:31 tempfile
-rwxr-xr-x 1 root root 109616 Sep 20 2022 touch
-rwxr-xr-x 1 root root 35664 Sep 20 2022 true
-rwxr-xr-x 1 root root 14568 Mar 22 20:35 ulockmgr_server
-rwsr-xr-x 1 root root 35128 Mar 22 22:02 umount
-rwxr-xr-x 1 root root 43888 Sep 20 2022 uname
-rwxr-xr-x 2 root root 2346 Apr 9 2022 uncompress
-rwxr-xr-x 1 root root 151344 Sep 20 2022 vdir
-rwxr-xr-x 1 root root 72024 Mar 22 22:02 wdctl
lrwxrwxrwx 1 root root 8 Dec 19 01:33 ypdomainname -> hostname
-rwxr-xr-x 1 root root 1984 Apr 9 2022 zcat
-rwxr-xr-x 1 root root 1678 Apr 9 2022 zcmp
-rwxr-xr-x 1 root root 6460 Apr 9 2022 zdiff
-rwxr-xr-x 1 root root 29 Apr 9 2022 zegrep
-rwxr-xr-x 1 root root 29 Apr 9 2022 zfgrep
-rwxr-xr-x 1 root root 2081 Apr 9 2022 zforce
-rwxr-xr-x 1 root root 8103 Apr 9 2022 zgrep
-rwxr-xr-x 1 root root 2206 Apr 9 2022 zless
-rwxr-xr-x 1 root root 1842 Apr 9 2022 zmore
-rwxr-xr-x 1 root root 4577 Apr 9 2022 znew
I: user script /srv/workspace/pbuilder/3095761/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 <pbuilder-maint@lists.alioth.debian.org>
Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder
This package was created automatically by pbuilder to satisfy the
build-dependencies of the package being currently built.
Depends: debhelper-compat (= 13), dh-python, python3-sphinx, python3-all, python3-setuptools, python3-h5py, python3-numpy, python3-pysam, python3-pytest, python3-uritools, python3-pytest-runner, python3-pytest-xdist, python3-pytest-cov, python3-biopython (>= 1.74), python3-xmlschema, pylint, python3-coverage
dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'.
Selecting previously unselected package pbuilder-satisfydepends-dummy.
(Reading database ... 19596 files and directories currently installed.)
Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ...
Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ...
dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested:
pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however:
Package debhelper-compat is not installed.
pbuilder-satisfydepends-dummy depends on dh-python; however:
Package dh-python is not installed.
pbuilder-satisfydepends-dummy depends on python3-sphinx; however:
Package python3-sphinx 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-h5py; however:
Package python3-h5py is not installed.
pbuilder-satisfydepends-dummy depends on python3-numpy; however:
Package python3-numpy is not installed.
pbuilder-satisfydepends-dummy depends on python3-pysam; however:
Package python3-pysam is not installed.
pbuilder-satisfydepends-dummy depends on python3-pytest; however:
Package python3-pytest is not installed.
pbuilder-satisfydepends-dummy depends on python3-uritools; however:
Package python3-uritools is not installed.
pbuilder-satisfydepends-dummy depends on python3-pytest-runner; however:
Package python3-pytest-runner is not installed.
pbuilder-satisfydepends-dummy depends on python3-pytest-xdist; however:
Package python3-pytest-xdist is not installed.
pbuilder-satisfydepends-dummy depends on python3-pytest-cov; however:
Package python3-pytest-cov is not installed.
pbuilder-satisfydepends-dummy depends on python3-biopython (>= 1.74); however:
Package python3-biopython is not installed.
pbuilder-satisfydepends-dummy depends on python3-xmlschema; however:
Package python3-xmlschema is not installed.
pbuilder-satisfydepends-dummy depends on pylint; however:
Package pylint is not installed.
pbuilder-satisfydepends-dummy depends on python3-coverage; however:
Package python3-coverage is not installed.
Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ...
Reading package lists...
Building dependency tree...
Reading state information...
Initializing package states...
Writing extended state information...
Building tag database...
pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0)
pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0)
The following NEW packages will be installed:
autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} ca-certificates{a} debhelper{a} dh-autoreconf{a} dh-python{a} dh-strip-nondeterminism{a} docutils-common{a} dwz{a} file{a} fonts-urw-base35{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libaec0{a} libarchive-zip-perl{a} libblas3{a} libbrotli1{a} libbsd0{a} libcurl3-gnutls{a} libcurl4{a} libdebhelper-perl{a} libdeflate0{a} libelf1{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libfontenc1{a} libfreetype6{a} libfribidi0{a} libgfortran5{a} libglib2.0-0{a} libgraphite2-3{a} libharfbuzz0b{a} libhdf5-103-1{a} libhdf5-hl-100{a} libhts3{a} libhtscodecs2{a} libicu72{a} libimagequant0{a} libjbig0{a} libjpeg62-turbo{a} libjs-jquery{a} libjs-jquery-hotkeys{a} libjs-jquery-isonscreen{a} libjs-jquery-metadata{a} libjs-jquery-tablesorter{a} libjs-jquery-throttle-debounce{a} libjs-sphinxdoc{a} libjs-underscore{a} libjson-perl{a} liblapack3{a} liblcms2-2{a} libldap-2.5-0{a} liblerc4{a} liblzf1{a} libmagic-mgc{a} libmagic1{a} libnghttp2-14{a} libopenjp2-7{a} libpipeline1{a} libpng16-16{a} libpsl5{a} libpython3-stdlib{a} libpython3.11-minimal{a} libpython3.11-stdlib{a} libraqm0{a} libreadline8{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libssh2-1{a} libsub-override-perl{a} libsz2{a} libtiff6{a} libtool{a} libuchardet0{a} libwebp7{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} openssl{a} po-debconf{a} pylint{a} python-babel-localedata{a} python3{a} python3-alabaster{a} python3-all{a} python3-astroid{a} python3-attr{a} python3-babel{a} python3-biopython{a} python3-certifi{a} python3-chardet{a} python3-charset-normalizer{a} python3-coverage{a} python3-dill{a} python3-distutils{a} python3-docutils{a} python3-elementpath{a} python3-execnet{a} python3-h5py{a} python3-h5py-serial{a} python3-idna{a} python3-imagesize{a} python3-importlib-metadata{a} python3-iniconfig{a} python3-isort{a} python3-jinja2{a} python3-lazy-object-proxy{a} python3-lib2to3{a} python3-logilab-common{a} python3-markupsafe{a} python3-mccabe{a} python3-minimal{a} python3-more-itertools{a} python3-mypy-extensions{a} python3-numpy{a} python3-packaging{a} python3-pil{a} python3-pkg-resources{a} python3-platformdirs{a} python3-pluggy{a} python3-py{a} python3-pygments{a} python3-pysam{a} python3-pytest{a} python3-pytest-cov{a} python3-pytest-runner{a} python3-pytest-xdist{a} python3-renderpm{a} python3-reportlab{a} python3-reportlab-accel{a} python3-requests{a} python3-roman{a} python3-setuptools{a} python3-six{a} python3-snowballstemmer{a} python3-sphinx{a} python3-toml{a} python3-tomlkit{a} python3-typing-extensions{a} python3-tz{a} python3-uritools{a} python3-urllib3{a} python3-wrapt{a} python3-xmlschema{a} python3-zipp{a} python3.11{a} python3.11-minimal{a} readline-common{a} sensible-utils{a} sgml-base{a} sphinx-common{a} w3c-sgml-lib{a} x11-common{a} xfonts-encodings{a} xfonts-utils{a} xml-core{a}
The following packages are RECOMMENDED but will NOT be installed:
curl javascript-common libarchive-cpio-perl libglib2.0-data libjson-xs-perl libldap-common libltdl-dev libmail-sendmail-perl libpaper-utils libsasl2-modules lynx ncbi-blast+ publicsuffix python-biopython-doc python3-olefile python3-tk shared-mime-info wget xdg-user-dirs
0 packages upgraded, 170 newly installed, 0 to remove and 0 not upgraded.
Need to get 74.8 MB of archives. After unpacking 280 MB will be used.
Writing extended state information...
Get: 1 http://deb.debian.org/debian bookworm/main amd64 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [326 kB]
Get: 2 http://deb.debian.org/debian bookworm/main amd64 libjs-jquery-hotkeys all 0~20130707+git2d51e3a9+dfsg-2.1 [11.5 kB]
Get: 3 http://deb.debian.org/debian bookworm/main amd64 libpython3.11-minimal amd64 3.11.2-6 [813 kB]
Get: 4 http://deb.debian.org/debian bookworm/main amd64 libexpat1 amd64 2.5.0-1 [99.3 kB]
Get: 5 http://deb.debian.org/debian bookworm/main amd64 python3.11-minimal amd64 3.11.2-6 [2064 kB]
Get: 6 http://deb.debian.org/debian bookworm/main amd64 python3-minimal amd64 3.11.2-1+b1 [26.3 kB]
Get: 7 http://deb.debian.org/debian bookworm/main amd64 media-types all 10.0.0 [26.1 kB]
Get: 8 http://deb.debian.org/debian bookworm/main amd64 mailcap all 3.70+nmu1 [32.0 kB]
Get: 9 http://deb.debian.org/debian bookworm/main amd64 mime-support all 3.66 [10.9 kB]
Get: 10 http://deb.debian.org/debian bookworm/main amd64 readline-common all 8.2-1.3 [69.0 kB]
Get: 11 http://deb.debian.org/debian bookworm/main amd64 libreadline8 amd64 8.2-1.3 [166 kB]
Get: 12 http://deb.debian.org/debian bookworm/main amd64 libpython3.11-stdlib amd64 3.11.2-6 [1796 kB]
Get: 13 http://deb.debian.org/debian bookworm/main amd64 python3.11 amd64 3.11.2-6 [572 kB]
Get: 14 http://deb.debian.org/debian bookworm/main amd64 libpython3-stdlib amd64 3.11.2-1+b1 [9312 B]
Get: 15 http://deb.debian.org/debian bookworm/main amd64 python3 amd64 3.11.2-1+b1 [26.3 kB]
Get: 16 http://deb.debian.org/debian bookworm/main amd64 sgml-base all 1.31 [15.4 kB]
Get: 17 http://deb.debian.org/debian bookworm/main amd64 sensible-utils all 0.0.17+nmu1 [19.0 kB]
Get: 18 http://deb.debian.org/debian bookworm/main amd64 openssl amd64 3.0.8-1 [1407 kB]
Get: 19 http://deb.debian.org/debian bookworm/main amd64 ca-certificates all 20230311 [153 kB]
Get: 20 http://deb.debian.org/debian bookworm/main amd64 libmagic-mgc amd64 1:5.44-3 [305 kB]
Get: 21 http://deb.debian.org/debian bookworm/main amd64 libmagic1 amd64 1:5.44-3 [104 kB]
Get: 22 http://deb.debian.org/debian bookworm/main amd64 file amd64 1:5.44-3 [42.5 kB]
Get: 23 http://deb.debian.org/debian bookworm/main amd64 gettext-base amd64 0.21-12 [160 kB]
Get: 24 http://deb.debian.org/debian bookworm/main amd64 libuchardet0 amd64 0.0.7-1 [67.8 kB]
Get: 25 http://deb.debian.org/debian bookworm/main amd64 groff-base amd64 1.22.4-10 [916 kB]
Get: 26 http://deb.debian.org/debian bookworm/main amd64 bsdextrautils amd64 2.38.1-5+b1 [86.6 kB]
Get: 27 http://deb.debian.org/debian bookworm/main amd64 libpipeline1 amd64 1.5.7-1 [38.5 kB]
Get: 28 http://deb.debian.org/debian bookworm/main amd64 man-db amd64 2.11.2-2 [1386 kB]
Get: 29 http://deb.debian.org/debian bookworm/main amd64 m4 amd64 1.4.19-3 [287 kB]
Get: 30 http://deb.debian.org/debian bookworm/main amd64 autoconf all 2.71-3 [332 kB]
Get: 31 http://deb.debian.org/debian bookworm/main amd64 autotools-dev all 20220109.1 [51.6 kB]
Get: 32 http://deb.debian.org/debian bookworm/main amd64 automake all 1:1.16.5-1.3 [823 kB]
Get: 33 http://deb.debian.org/debian bookworm/main amd64 autopoint all 0.21-12 [495 kB]
Get: 34 http://deb.debian.org/debian bookworm/main amd64 libdebhelper-perl all 13.11.4 [81.2 kB]
Get: 35 http://deb.debian.org/debian bookworm/main amd64 libtool all 2.4.7-5 [517 kB]
Get: 36 http://deb.debian.org/debian bookworm/main amd64 dh-autoreconf all 20 [17.1 kB]
Get: 37 http://deb.debian.org/debian bookworm/main amd64 libarchive-zip-perl all 1.68-1 [104 kB]
Get: 38 http://deb.debian.org/debian bookworm/main amd64 libsub-override-perl all 0.09-4 [9304 B]
Get: 39 http://deb.debian.org/debian bookworm/main amd64 libfile-stripnondeterminism-perl all 1.13.1-1 [19.4 kB]
Get: 40 http://deb.debian.org/debian bookworm/main amd64 dh-strip-nondeterminism all 1.13.1-1 [8620 B]
Get: 41 http://deb.debian.org/debian bookworm/main amd64 libelf1 amd64 0.188-2.1 [174 kB]
Get: 42 http://deb.debian.org/debian bookworm/main amd64 dwz amd64 0.15-1 [109 kB]
Get: 43 http://deb.debian.org/debian bookworm/main amd64 libicu72 amd64 72.1-3 [9376 kB]
Get: 44 http://deb.debian.org/debian bookworm/main amd64 libxml2 amd64 2.9.14+dfsg-1.2 [687 kB]
Get: 45 http://deb.debian.org/debian bookworm/main amd64 gettext amd64 0.21-12 [1300 kB]
Get: 46 http://deb.debian.org/debian bookworm/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB]
Get: 47 http://deb.debian.org/debian bookworm/main amd64 po-debconf all 1.0.21+nmu1 [248 kB]
Get: 48 http://deb.debian.org/debian bookworm/main amd64 debhelper all 13.11.4 [942 kB]
Get: 49 http://deb.debian.org/debian bookworm/main amd64 python3-lib2to3 all 3.11.2-2 [76.2 kB]
Get: 50 http://deb.debian.org/debian bookworm/main amd64 python3-distutils all 3.11.2-2 [131 kB]
Get: 51 http://deb.debian.org/debian bookworm/main amd64 dh-python all 5.20230130 [104 kB]
Get: 52 http://deb.debian.org/debian bookworm/main amd64 xml-core all 0.18+nmu1 [23.8 kB]
Get: 53 http://deb.debian.org/debian bookworm/main amd64 docutils-common all 0.19+dfsg-6 [127 kB]
Get: 54 http://deb.debian.org/debian bookworm/main amd64 libfontenc1 amd64 1:1.1.4-1 [24.3 kB]
Get: 55 http://deb.debian.org/debian bookworm/main amd64 libbrotli1 amd64 1.0.9-2+b6 [275 kB]
Get: 56 http://deb.debian.org/debian bookworm/main amd64 libpng16-16 amd64 1.6.39-2 [276 kB]
Get: 57 http://deb.debian.org/debian bookworm/main amd64 libfreetype6 amd64 2.12.1+dfsg-4 [399 kB]
Get: 58 http://deb.debian.org/debian bookworm/main amd64 x11-common all 1:7.7+23 [252 kB]
Get: 59 http://deb.debian.org/debian bookworm/main amd64 xfonts-encodings all 1:1.0.4-2.2 [577 kB]
Get: 60 http://deb.debian.org/debian bookworm/main amd64 xfonts-utils amd64 1:7.7+6 [93.0 kB]
Get: 61 http://deb.debian.org/debian bookworm/main amd64 fonts-urw-base35 all 20200910-7 [10.8 MB]
Get: 62 http://deb.debian.org/debian bookworm/main amd64 libaec0 amd64 1.0.6-1+b1 [21.1 kB]
Get: 63 http://deb.debian.org/debian bookworm/main amd64 libblas3 amd64 3.11.0-2 [149 kB]
Get: 64 http://deb.debian.org/debian bookworm/main amd64 libbsd0 amd64 0.11.7-2 [117 kB]
Get: 65 http://deb.debian.org/debian bookworm/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg-10 [20.3 kB]
Get: 66 http://deb.debian.org/debian bookworm/main amd64 libsasl2-2 amd64 2.1.28+dfsg-10 [59.7 kB]
Get: 67 http://deb.debian.org/debian bookworm/main amd64 libldap-2.5-0 amd64 2.5.13+dfsg-5 [183 kB]
Get: 68 http://deb.debian.org/debian bookworm/main amd64 libnghttp2-14 amd64 1.52.0-1 [72.3 kB]
Get: 69 http://deb.debian.org/debian bookworm/main amd64 libpsl5 amd64 0.21.2-1 [58.7 kB]
Get: 70 http://deb.debian.org/debian bookworm/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b2 [60.8 kB]
Get: 71 http://deb.debian.org/debian bookworm/main amd64 libssh2-1 amd64 1.10.0-3+b1 [179 kB]
Get: 72 http://deb.debian.org/debian bookworm/main amd64 libcurl3-gnutls amd64 7.88.1-9 [381 kB]
Get: 73 http://deb.debian.org/debian bookworm/main amd64 libcurl4 amd64 7.88.1-9 [386 kB]
Get: 74 http://deb.debian.org/debian bookworm/main amd64 libdeflate0 amd64 1.14-1 [61.4 kB]
Get: 75 http://deb.debian.org/debian bookworm/main amd64 libfribidi0 amd64 1.0.8-2.1 [65.0 kB]
Get: 76 http://deb.debian.org/debian bookworm/main amd64 libgfortran5 amd64 12.2.0-14 [793 kB]
Get: 77 http://deb.debian.org/debian bookworm/main amd64 libglib2.0-0 amd64 2.74.6-2 [1398 kB]
Get: 78 http://deb.debian.org/debian bookworm/main amd64 libgraphite2-3 amd64 1.3.14-1 [81.2 kB]
Get: 79 http://deb.debian.org/debian bookworm/main amd64 libharfbuzz0b amd64 6.0.0+dfsg-3 [1945 kB]
Get: 80 http://deb.debian.org/debian bookworm/main amd64 libsz2 amd64 1.0.6-1+b1 [7804 B]
Get: 81 http://deb.debian.org/debian bookworm/main amd64 libhdf5-103-1 amd64 1.10.8+repack1-1 [1237 kB]
Get: 82 http://deb.debian.org/debian bookworm/main amd64 libhdf5-hl-100 amd64 1.10.8+repack1-1 [67.8 kB]
Get: 83 http://deb.debian.org/debian bookworm/main amd64 libhtscodecs2 amd64 1.3.0-4 [87.5 kB]
Get: 84 http://deb.debian.org/debian bookworm/main amd64 libhts3 amd64 1.16+ds-3 [430 kB]
Get: 85 http://deb.debian.org/debian bookworm/main amd64 libimagequant0 amd64 2.17.0-1 [32.5 kB]
Get: 86 http://deb.debian.org/debian bookworm/main amd64 libjbig0 amd64 2.1-6.1 [31.7 kB]
Get: 87 http://deb.debian.org/debian bookworm/main amd64 libjpeg62-turbo amd64 1:2.1.5-2 [166 kB]
Get: 88 http://deb.debian.org/debian bookworm/main amd64 libjs-jquery-isonscreen all 1.2.0-1.1 [3196 B]
Get: 89 http://deb.debian.org/debian bookworm/main amd64 libjs-jquery-metadata all 12-4 [6532 B]
Get: 90 http://deb.debian.org/debian bookworm/main amd64 libjs-jquery-tablesorter all 1:2.31.3+dfsg1-3 [184 kB]
Get: 91 http://deb.debian.org/debian bookworm/main amd64 libjs-jquery-throttle-debounce all 1.1+dfsg.1-2 [12.2 kB]
Get: 92 http://deb.debian.org/debian bookworm/main amd64 libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [116 kB]
Get: 93 http://deb.debian.org/debian bookworm/main amd64 libjs-sphinxdoc all 5.3.0-4 [130 kB]
Get: 94 http://deb.debian.org/debian bookworm/main amd64 libjson-perl all 4.10000-1 [87.5 kB]
Get: 95 http://deb.debian.org/debian bookworm/main amd64 liblapack3 amd64 3.11.0-2 [2323 kB]
Get: 96 http://deb.debian.org/debian bookworm/main amd64 liblcms2-2 amd64 2.14-2 [154 kB]
Get: 97 http://deb.debian.org/debian bookworm/main amd64 liblerc4 amd64 4.0.0+ds-2 [170 kB]
Get: 98 http://deb.debian.org/debian bookworm/main amd64 liblzf1 amd64 3.6-3 [10.2 kB]
Get: 99 http://deb.debian.org/debian bookworm/main amd64 libopenjp2-7 amd64 2.5.0-1+b1 [189 kB]
Get: 100 http://deb.debian.org/debian bookworm/main amd64 libraqm0 amd64 0.7.0-4.1 [10.6 kB]
Get: 101 http://deb.debian.org/debian bookworm/main amd64 libwebp7 amd64 1.2.4-0.1 [285 kB]
Get: 102 http://deb.debian.org/debian bookworm/main amd64 libtiff6 amd64 4.5.0-5 [316 kB]
Get: 103 http://deb.debian.org/debian bookworm/main amd64 libwebpdemux2 amd64 1.2.4-0.1 [99.2 kB]
Get: 104 http://deb.debian.org/debian bookworm/main amd64 libwebpmux3 amd64 1.2.4-0.1 [109 kB]
Get: 105 http://deb.debian.org/debian bookworm/main amd64 libxau6 amd64 1:1.0.9-1 [19.7 kB]
Get: 106 http://deb.debian.org/debian bookworm/main amd64 libxdmcp6 amd64 1:1.1.2-3 [26.3 kB]
Get: 107 http://deb.debian.org/debian bookworm/main amd64 libxcb1 amd64 1.15-1 [144 kB]
Get: 108 http://deb.debian.org/debian bookworm/main amd64 python3-pkg-resources all 66.1.1-1 [296 kB]
Get: 109 http://deb.debian.org/debian bookworm/main amd64 python3-setuptools all 66.1.1-1 [521 kB]
Get: 110 http://deb.debian.org/debian bookworm/main amd64 python3-six all 1.16.0-4 [17.5 kB]
Get: 111 http://deb.debian.org/debian bookworm/main amd64 python3-typing-extensions all 4.4.0-1 [45.2 kB]
Get: 112 http://deb.debian.org/debian bookworm/main amd64 python3-lazy-object-proxy amd64 1.9.0-1+b1 [21.5 kB]
Get: 113 http://deb.debian.org/debian bookworm/main amd64 python3-wrapt amd64 1.14.1-2+b2 [42.1 kB]
Get: 114 http://deb.debian.org/debian bookworm/main amd64 python3-astroid all 2.14.2-1 [209 kB]
Get: 115 http://deb.debian.org/debian bookworm/main amd64 python3-toml all 0.10.2-1 [16.2 kB]
Get: 116 http://deb.debian.org/debian bookworm/main amd64 python3-isort all 5.6.4-1 [63.2 kB]
Get: 117 http://deb.debian.org/debian bookworm/main amd64 python3-more-itertools all 8.10.0-2 [53.0 kB]
Get: 118 http://deb.debian.org/debian bookworm/main amd64 python3-zipp all 1.0.0-6 [6696 B]
Get: 119 http://deb.debian.org/debian bookworm/main amd64 python3-importlib-metadata all 4.12.0-1 [24.9 kB]
Get: 120 http://deb.debian.org/debian bookworm/main amd64 python3-mypy-extensions all 0.4.3-4 [5788 B]
Get: 121 http://deb.debian.org/debian bookworm/main amd64 python3-logilab-common all 1.9.8-1 [380 kB]
Get: 122 http://deb.debian.org/debian bookworm/main amd64 python3-dill all 0.3.6-1 [79.5 kB]
Get: 123 http://deb.debian.org/debian bookworm/main amd64 python3-mccabe all 0.7.0-1 [10.5 kB]
Get: 124 http://deb.debian.org/debian bookworm/main amd64 python3-platformdirs all 2.6.0-1 [16.3 kB]
Get: 125 http://deb.debian.org/debian bookworm/main amd64 python3-tomlkit all 0.11.7-1 [40.5 kB]
Get: 126 http://deb.debian.org/debian bookworm/main amd64 pylint all 2.16.2-2 [339 kB]
Get: 127 http://deb.debian.org/debian bookworm/main amd64 python-babel-localedata all 2.10.3-1 [5615 kB]
Get: 128 http://deb.debian.org/debian bookworm/main amd64 python3-alabaster all 0.7.12-1 [20.8 kB]
Get: 129 http://deb.debian.org/debian bookworm/main amd64 python3-all amd64 3.11.2-1+b1 [1056 B]
Get: 130 http://deb.debian.org/debian bookworm/main amd64 python3-attr all 22.2.0-1 [65.4 kB]
Get: 131 http://deb.debian.org/debian bookworm/main amd64 python3-tz all 2022.7.1-3 [30.1 kB]
Get: 132 http://deb.debian.org/debian bookworm/main amd64 python3-babel all 2.10.3-1 [103 kB]
Get: 133 http://deb.debian.org/debian bookworm/main amd64 python3-numpy amd64 1:1.24.2-1 [5209 kB]
Get: 134 http://deb.debian.org/debian bookworm/main amd64 python3-renderpm amd64 3.6.12-1+b1 [79.2 kB]
Get: 135 http://deb.debian.org/debian bookworm/main amd64 python3-reportlab-accel amd64 3.6.12-1+b1 [38.6 kB]
Get: 136 http://deb.debian.org/debian bookworm/main amd64 python3-pil amd64 9.4.0-1.1+b1 [472 kB]
Get: 137 http://deb.debian.org/debian bookworm/main amd64 python3-reportlab all 3.6.12-1 [564 kB]
Get: 138 http://deb.debian.org/debian bookworm/main amd64 w3c-sgml-lib all 1.3-3 [273 kB]
Get: 139 http://deb.debian.org/debian bookworm/main amd64 python3-biopython amd64 1.80+dfsg-4+b1 [1593 kB]
Get: 140 http://deb.debian.org/debian bookworm/main amd64 python3-certifi all 2022.9.24-1 [153 kB]
Get: 141 http://deb.debian.org/debian bookworm/main amd64 python3-chardet all 5.1.0+dfsg-2 [110 kB]
Get: 142 http://deb.debian.org/debian bookworm/main amd64 python3-charset-normalizer all 3.0.1-2 [49.3 kB]
Get: 143 http://deb.debian.org/debian bookworm/main amd64 python3-coverage amd64 6.5.0+dfsg1-2+b1 [153 kB]
Get: 144 http://deb.debian.org/debian bookworm/main amd64 python3-roman all 3.3-3 [9880 B]
Get: 145 http://deb.debian.org/debian bookworm/main amd64 python3-docutils all 0.19+dfsg-6 [382 kB]
Get: 146 http://deb.debian.org/debian bookworm/main amd64 python3-elementpath all 2.5.3-1 [121 kB]
Get: 147 http://deb.debian.org/debian bookworm/main amd64 python3-execnet all 1.9.0-1 [41.5 kB]
Get: 148 http://deb.debian.org/debian bookworm/main amd64 python3-h5py-serial amd64 3.7.0-8 [804 kB]
Get: 149 http://deb.debian.org/debian bookworm/main amd64 python3-h5py all 3.7.0-8 [10.3 kB]
Get: 150 http://deb.debian.org/debian bookworm/main amd64 python3-idna all 3.3-1 [39.4 kB]
Get: 151 http://deb.debian.org/debian bookworm/main amd64 python3-imagesize all 1.4.1-1 [6688 B]
Get: 152 http://deb.debian.org/debian bookworm/main amd64 python3-iniconfig all 1.1.1-2 [6396 B]
Get: 153 http://deb.debian.org/debian bookworm/main amd64 python3-markupsafe amd64 2.1.2-1+b1 [13.2 kB]
Get: 154 http://deb.debian.org/debian bookworm/main amd64 python3-jinja2 all 3.1.2-1 [119 kB]
Get: 155 http://deb.debian.org/debian bookworm/main amd64 python3-packaging all 23.0-1 [32.5 kB]
Get: 156 http://deb.debian.org/debian bookworm/main amd64 python3-pluggy all 1.0.0+repack-1 [19.7 kB]
Get: 157 http://deb.debian.org/debian bookworm/main amd64 python3-py all 1.11.0-1 [89.2 kB]
Get: 158 http://deb.debian.org/debian bookworm/main amd64 python3-pygments all 2.14.0+dfsg-1 [783 kB]
Get: 159 http://deb.debian.org/debian bookworm/main amd64 python3-pysam amd64 0.20.0+ds-3+b1 [1681 kB]
Get: 160 http://deb.debian.org/debian bookworm/main amd64 python3-pytest all 7.2.1-2 [236 kB]
Get: 161 http://deb.debian.org/debian bookworm/main amd64 python3-pytest-cov all 4.0.0-1 [26.1 kB]
Get: 162 http://deb.debian.org/debian bookworm/main amd64 python3-pytest-runner all 2.11.1-4 [8432 B]
Get: 163 http://deb.debian.org/debian bookworm/main amd64 python3-pytest-xdist all 3.1.0-1 [39.6 kB]
Get: 164 http://deb.debian.org/debian bookworm/main amd64 python3-urllib3 all 1.26.12-1 [117 kB]
Get: 165 http://deb.debian.org/debian bookworm/main amd64 python3-requests all 2.28.1+dfsg-1 [67.9 kB]
Get: 166 http://deb.debian.org/debian bookworm/main amd64 python3-snowballstemmer all 2.2.0-2 [57.8 kB]
Get: 167 http://deb.debian.org/debian bookworm/main amd64 sphinx-common all 5.3.0-4 [653 kB]
Get: 168 http://deb.debian.org/debian bookworm/main amd64 python3-sphinx all 5.3.0-4 [549 kB]
Get: 169 http://deb.debian.org/debian bookworm/main amd64 python3-uritools all 4.0.0-1 [25.3 kB]
Get: 170 http://deb.debian.org/debian bookworm/main amd64 python3-xmlschema all 1.10.0-6 [177 kB]
Fetched 74.8 MB in 3s (29.4 MB/s)
debconf: delaying package configuration, since apt-utils is not installed
Selecting previously unselected package libjs-jquery.
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Unpacking libjs-jquery (3.6.1+dfsg+~3.5.14-1) ...
Selecting previously unselected package libjs-jquery-hotkeys.
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Unpacking libjs-jquery-hotkeys (0~20130707+git2d51e3a9+dfsg-2.1) ...
Selecting previously unselected package libpython3.11-minimal:amd64.
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Unpacking libpython3.11-minimal:amd64 (3.11.2-6) ...
Selecting previously unselected package libexpat1:amd64.
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Selecting previously unselected package python3.11-minimal.
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Unpacking python3.11-minimal (3.11.2-6) ...
Setting up libpython3.11-minimal:amd64 (3.11.2-6) ...
Setting up libexpat1:amd64 (2.5.0-1) ...
Setting up python3.11-minimal (3.11.2-6) ...
Selecting previously unselected package python3-minimal.
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Preparing to unpack .../0-python3-minimal_3.11.2-1+b1_amd64.deb ...
Unpacking python3-minimal (3.11.2-1+b1) ...
Selecting previously unselected package media-types.
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Unpacking media-types (10.0.0) ...
Selecting previously unselected package mailcap.
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Unpacking mailcap (3.70+nmu1) ...
Selecting previously unselected package mime-support.
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Unpacking mime-support (3.66) ...
Selecting previously unselected package readline-common.
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Unpacking readline-common (8.2-1.3) ...
Selecting previously unselected package libreadline8:amd64.
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Unpacking libreadline8:amd64 (8.2-1.3) ...
Selecting previously unselected package libpython3.11-stdlib:amd64.
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Unpacking libpython3.11-stdlib:amd64 (3.11.2-6) ...
Selecting previously unselected package python3.11.
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Unpacking python3.11 (3.11.2-6) ...
Selecting previously unselected package libpython3-stdlib:amd64.
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Unpacking libpython3-stdlib:amd64 (3.11.2-1+b1) ...
Setting up python3-minimal (3.11.2-1+b1) ...
Selecting previously unselected package python3.
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Preparing to unpack .../000-python3_3.11.2-1+b1_amd64.deb ...
Unpacking python3 (3.11.2-1+b1) ...
Selecting previously unselected package sgml-base.
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Unpacking sgml-base (1.31) ...
Selecting previously unselected package sensible-utils.
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Unpacking sensible-utils (0.0.17+nmu1) ...
Selecting previously unselected package openssl.
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Unpacking openssl (3.0.8-1) ...
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Unpacking ca-certificates (20230311) ...
Selecting previously unselected package libmagic-mgc.
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Unpacking libmagic-mgc (1:5.44-3) ...
Selecting previously unselected package libmagic1:amd64.
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Unpacking libmagic1:amd64 (1:5.44-3) ...
Selecting previously unselected package file.
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Unpacking file (1:5.44-3) ...
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Unpacking gettext-base (0.21-12) ...
Selecting previously unselected package libuchardet0:amd64.
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Unpacking groff-base (1.22.4-10) ...
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Unpacking bsdextrautils (2.38.1-5+b1) ...
Selecting previously unselected package libpipeline1:amd64.
Preparing to unpack .../012-libpipeline1_1.5.7-1_amd64.deb ...
Unpacking libpipeline1:amd64 (1.5.7-1) ...
Selecting previously unselected package man-db.
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Unpacking man-db (2.11.2-2) ...
Selecting previously unselected package m4.
Preparing to unpack .../014-m4_1.4.19-3_amd64.deb ...
Unpacking m4 (1.4.19-3) ...
Selecting previously unselected package autoconf.
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Unpacking autoconf (2.71-3) ...
Selecting previously unselected package autotools-dev.
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Unpacking autotools-dev (20220109.1) ...
Selecting previously unselected package automake.
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Unpacking libdebhelper-perl (13.11.4) ...
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Unpacking dh-autoreconf (20) ...
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Unpacking libarchive-zip-perl (1.68-1) ...
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Unpacking libsub-override-perl (0.09-4) ...
Selecting previously unselected package libfile-stripnondeterminism-perl.
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Unpacking libfile-stripnondeterminism-perl (1.13.1-1) ...
Selecting previously unselected package dh-strip-nondeterminism.
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I: Building the package
I: Running cd /build/python-pbcore-2.1.2+dfsg/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../python-pbcore_2.1.2+dfsg-5_source.changes
dpkg-buildpackage: info: source package python-pbcore
dpkg-buildpackage: info: source version 2.1.2+dfsg-5
dpkg-buildpackage: info: source distribution unstable
dpkg-buildpackage: info: source changed by Étienne Mollier <emollier@debian.org>
dpkg-source --before-build .
dpkg-buildpackage: info: host architecture amd64
debian/rules clean
debian/rules:55: warning: overriding recipe for target 'override_dh_auto_clean'
debian/rules:28: warning: ignoring old recipe for target 'override_dh_auto_clean'
dh clean --with python3 --buildsystem=pybuild
debian/rules override_dh_auto_clean
make[1]: Entering directory '/build/python-pbcore-2.1.2+dfsg'
debian/rules:55: warning: overriding recipe for target 'override_dh_auto_clean'
debian/rules:28: warning: ignoring old recipe for target 'override_dh_auto_clean'
rm -f doc/pbcore.data.datasets.rst doc/pbcore.io.align.rst doc/pbcore.io.dataset.pyxb.rst
rm -fr coverage.xml .eggs/README.txt .pytest_cache
rm -rf .pybuild
rm -rf _tmp doc/_build/
find . -name __pycache__ | xargs -r rm -rf
rm -f .coverage nosetests.xml
rm -rf pbcore.egg-info
make[1]: Leaving directory '/build/python-pbcore-2.1.2+dfsg'
dh_autoreconf_clean -O--buildsystem=pybuild
dh_clean -O--buildsystem=pybuild
debian/rules binary
debian/rules:55: warning: overriding recipe for target 'override_dh_auto_clean'
debian/rules:28: warning: ignoring old recipe for target 'override_dh_auto_clean'
dh binary --with python3 --buildsystem=pybuild
dh_update_autotools_config -O--buildsystem=pybuild
dh_autoreconf -O--buildsystem=pybuild
dh_auto_configure -O--buildsystem=pybuild
I: pybuild base:240: python3.11 setup.py config
/usr/lib/python3/dist-packages/setuptools/dist.py:775: UserWarning: Usage of dash-separated 'description-file' will not be supported in future versions. Please use the underscore name 'description_file' instead
warnings.warn(
running config
debian/rules override_dh_auto_build
make[1]: Entering directory '/build/python-pbcore-2.1.2+dfsg'
debian/rules:55: warning: overriding recipe for target 'override_dh_auto_clean'
debian/rules:28: warning: ignoring old recipe for target 'override_dh_auto_clean'
dh_auto_build
I: pybuild base:240: /usr/bin/python3 setup.py build
/usr/lib/python3/dist-packages/setuptools/dist.py:775: UserWarning: Usage of dash-separated 'description-file' will not be supported in future versions. Please use the underscore name 'description_file' instead
warnings.warn(
running build
running build_py
creating /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore
copying pbcore/sequence.py -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore
copying pbcore/__init__.py -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore
creating /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/util
copying pbcore/util/statistics.py -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/util
copying pbcore/util/decorators.py -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/util
copying pbcore/util/__init__.py -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/util
copying pbcore/util/ToolRunner.py -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/util
creating /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/model
copying pbcore/model/baseRegions.py -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/model
copying pbcore/model/__init__.py -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/model
creating /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io
copying pbcore/io/opener.py -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io
copying pbcore/io/base.py -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io
copying pbcore/io/_utils.py -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io
copying pbcore/io/__init__.py -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io
copying pbcore/io/VcfIO.py -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io
copying pbcore/io/GffIO.py -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io
copying pbcore/io/FofnIO.py -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io
copying pbcore/io/FastqIO.py -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io
copying pbcore/io/FastaIO.py -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io
creating /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data
copying pbcore/data/__init__.py -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data
creating /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/chemistry
copying pbcore/chemistry/chemistry.py -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/chemistry
copying pbcore/chemistry/__init__.py -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/chemistry
creating /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/dataset
copying pbcore/io/dataset/DataSetMembers.py -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/dataset
copying pbcore/io/dataset/DataSetValidator.py -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/dataset
copying pbcore/io/dataset/utils.py -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/dataset
copying pbcore/io/dataset/run_split.py -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/dataset
copying pbcore/io/dataset/__init__.py -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/dataset
copying pbcore/io/dataset/DataSetWriter.py -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/dataset
copying pbcore/io/dataset/DataSetUtils.py -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/dataset
copying pbcore/io/dataset/DataSetReader.py -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/dataset
copying pbcore/io/dataset/DataSetMetaTypes.py -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/dataset
copying pbcore/io/dataset/DataSetIO.py -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/dataset
copying pbcore/io/dataset/DataSetErrors.py -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/dataset
creating /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/align
copying pbcore/io/align/__init__.py -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/align
copying pbcore/io/align/_BamSupport.py -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/align
copying pbcore/io/align/_AlignmentMixin.py -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/align
copying pbcore/io/align/PacBioBamIndex.py -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/align
copying pbcore/io/align/BlasrIO.py -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/align
copying pbcore/io/align/BamIO.py -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/align
copying pbcore/io/align/BamAlignment.py -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/align
creating /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/__init__.py -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets
running egg_info
creating pbcore.egg-info
writing pbcore.egg-info/PKG-INFO
writing dependency_links to pbcore.egg-info/dependency_links.txt
writing entry points to pbcore.egg-info/entry_points.txt
writing requirements to pbcore.egg-info/requires.txt
writing top-level names to pbcore.egg-info/top_level.txt
writing manifest file 'pbcore.egg-info/SOURCES.txt'
reading manifest file 'pbcore.egg-info/SOURCES.txt'
reading manifest template 'MANIFEST.in'
warning: no files found matching '*.txt'
warning: no directories found matching 'bin'
adding license file 'LICENSE'
writing manifest file 'pbcore.egg-info/SOURCES.txt'
/usr/lib/python3/dist-packages/setuptools/command/build_py.py:202: SetuptoolsDeprecationWarning: Installing 'pbcore.chemistry.resources' as data is deprecated, please list it in `packages`.
!!
############################
# Package would be ignored #
############################
Python recognizes 'pbcore.chemistry.resources' as an importable package,
but it is not listed in the `packages` configuration of setuptools.
'pbcore.chemistry.resources' has been automatically added to the distribution only
because it may contain data files, but this behavior is likely to change
in future versions of setuptools (and therefore is considered deprecated).
Please make sure that 'pbcore.chemistry.resources' is included as a package by using
the `packages` configuration field or the proper discovery methods
(for example by using `find_namespace_packages(...)`/`find_namespace:`
instead of `find_packages(...)`/`find:`).
You can read more about "package discovery" and "data files" on setuptools
documentation page.
!!
check.warn(importable)
copying pbcore/data/Fluidigm_human_amplicons.fasta -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data
copying pbcore/data/Fluidigm_human_amplicons.fasta.fai -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data
copying pbcore/data/Fluidigm_human_amplicons_tiny.fasta -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data
copying pbcore/data/barcodes-ed65-450.fasta -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data
copying pbcore/data/barcodes-ed65-450.fasta.fai -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data
copying pbcore/data/blasr-output.m4 -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data
copying pbcore/data/blasr-output.m5 -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data
copying pbcore/data/chemistry.xml -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data
copying pbcore/data/empty.aligned_subreads.bam -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data
copying pbcore/data/empty.aligned_subreads.bam.pbi -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data
copying pbcore/data/empty.ccs.bam -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data
copying pbcore/data/empty.ccs.bam.pbi -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data
copying pbcore/data/empty2.bam -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data
copying pbcore/data/empty2.bam.pbi -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data
copying pbcore/data/lambdaNEB.fa -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data
copying pbcore/data/lambdaNEB.fa.fai -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data
copying pbcore/data/m130727_114215_42211_c100569412550000001823090301191423_s1_p0.ccs.bam -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data
copying pbcore/data/m130727_114215_42211_c100569412550000001823090301191423_s1_p0.ccs.bam.bai -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data
copying pbcore/data/m130727_114215_42211_c100569412550000001823090301191423_s1_p0.ccs.bam.pbi -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data
copying pbcore/data/m140905_042212_sidney_c100564852550000001823085912221377_s1_X0.aligned_subreads.bam -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data
copying pbcore/data/m140905_042212_sidney_c100564852550000001823085912221377_s1_X0.aligned_subreads.bam.bai -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data
copying pbcore/data/m140905_042212_sidney_c100564852550000001823085912221377_s1_X0.aligned_subreads.bam.pbi -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data
copying pbcore/data/m140905_042212_sidney_c100564852550000001823085912221377_s1_X0.scraps.bam -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data
copying pbcore/data/m140905_042212_sidney_c100564852550000001823085912221377_s1_X0.scraps.bam.pbi -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data
copying pbcore/data/m140905_042212_sidney_c100564852550000001823085912221377_s1_X0.subreads.bam -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data
copying pbcore/data/m140905_042212_sidney_c100564852550000001823085912221377_s1_X0.subreads.bam.pbi -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data
copying pbcore/data/variants.gff -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data
copying pbcore/data/weird.fa -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data
copying pbcore/data/weird.fa.fai -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data
creating /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/chemistry/resources
copying pbcore/chemistry/resources/mapping.xml -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/chemistry/resources
copying pbcore/data/datasets/CollectionMetadata.xml -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/alignment.dataset.xml -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/barcode.dataset.xml -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/ccsaligned.dataset.xml -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/ccsread.dataset.xml -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/contig.dataset.xml -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/empty_lambda.aligned.bam -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/empty_lambda.aligned.bam.bai -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/empty_lambda.aligned.bam.pbi -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/fofn.fofn -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/lambda.alignmentset.xml -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/lambda.referenceset.xml -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/m140905_042212_sidney_c100564852550000001823085912221377_s1_X0.subreads.fake_bc.bam -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/m140905_042212_sidney_c100564852550000001823085912221377_s1_X0.subreads.fake_bc.bam.bai -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/m140905_042212_sidney_c100564852550000001823085912221377_s1_X0.subreads.fake_bc.bam.pbi -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/m150430_142051_Mon_p1_b25.sts.xml -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/m150616_053259_ethan_c100710482550000001823136404221563_s1_p0.sts.xml -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/pbalchemysim.alignmentset.xml -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/pbalchemysim0.alignmentset.chunk0contigs.xml -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/pbalchemysim0.alignmentset.chunk1contigs.xml -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/pbalchemysim0.alignmentset.xml -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/pbalchemysim0.pbalign.bam -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/pbalchemysim0.pbalign.bam.bai -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/pbalchemysim0.pbalign.bam.pbi -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/pbalchemysim0.reference.fasta -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/pbalchemysim0.reference.fasta.fai -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/pbalchemysim0.referenceset.xml -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/pbalchemysim0.subreads.bam -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/pbalchemysim0.subreads.bam.bai -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/pbalchemysim0.subreads.bam.pbi -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/pbalchemysim0.subreadset.xml -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/pbalchemysim1.alignmentset.xml -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/pbalchemysim1.pbalign.bam -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/pbalchemysim1.pbalign.bam.bai -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/pbalchemysim1.pbalign.bam.pbi -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/pbalchemysim1.subreads.bam -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/pbalchemysim1.subreads.bam.bai -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/pbalchemysim1.subreads.bam.pbi -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/pbalchemysim1.subreadset.xml -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/reference.dataset.xml -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/subread.dataset.xml -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/subreadSetWithStats.xml -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets
PYTHONPATH=/build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build /usr/bin/make doc
make[2]: Entering directory '/build/python-pbcore-2.1.2+dfsg'
sphinx-apidoc -o doc/ pbcore/ && cd doc/ && make html
File doc/pbcore.rst already exists, skipping.
File doc/pbcore.chemistry.rst already exists, skipping.
File doc/pbcore.data.rst already exists, skipping.
Creating file doc/pbcore.data.datasets.rst.
File doc/pbcore.io.rst already exists, skipping.
Creating file doc/pbcore.io.align.rst.
File doc/pbcore.io.dataset.rst already exists, skipping.
File doc/pbcore.model.rst already exists, skipping.
File doc/pbcore.util.rst already exists, skipping.
File doc/modules.rst already exists, skipping.
make[3]: Entering directory '/build/python-pbcore-2.1.2+dfsg/doc'
sphinx-apidoc -o . -d 4 ../pbcore/
File ./pbcore.rst already exists, skipping.
File ./pbcore.chemistry.rst already exists, skipping.
File ./pbcore.data.rst already exists, skipping.
File ./pbcore.data.datasets.rst already exists, skipping.
File ./pbcore.io.rst already exists, skipping.
File ./pbcore.io.align.rst already exists, skipping.
File ./pbcore.io.dataset.rst already exists, skipping.
File ./pbcore.model.rst already exists, skipping.
File ./pbcore.util.rst already exists, skipping.
File ./modules.rst already exists, skipping.
sphinx-build -b html -d _build/doctrees . _build/html
Running Sphinx v5.3.0
making output directory... done
loading intersphinx inventory from http://docs.python.org/objects.inv...
WARNING: failed to reach any of the inventories with the following issues:
intersphinx inventory 'http://docs.python.org/objects.inv' not fetchable due to <class 'requests.exceptions.ConnectionError'>: HTTPConnectionPool(host='docs.python.org', port=80): Max retries exceeded with url: /objects.inv (Caused by NewConnectionError('<urllib3.connection.HTTPConnection object at 0x7fb84202ffd0>: Failed to establish a new connection: [Errno -3] Temporary failure in name resolution'))
building [mo]: targets for 0 po files that are out of date
building [html]: targets for 11 source files that are out of date
updating environment: [new config] 11 added, 0 changed, 0 removed
reading sources... [ 9%] index
reading sources... [ 18%] modules
reading sources... [ 27%] pbcore
reading sources... [ 36%] pbcore.chemistry
reading sources... [ 45%] pbcore.data
reading sources... [ 54%] pbcore.data.datasets
reading sources... [ 63%] pbcore.io
reading sources... [ 72%] pbcore.io.align
reading sources... [ 81%] pbcore.io.dataset
reading sources... [ 90%] pbcore.model
reading sources... [100%] pbcore.util
/build/python-pbcore-2.1.2+dfsg/doc/pbcore.rst:7: WARNING: toctree contains reference to nonexisting document 'pbcore.deprecated'
/build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/dataset/DataSetMembers.py:docstring of pbcore.io.dataset.DataSetMembers:47: ERROR: Unexpected indentation.
WARNING: autodoc: failed to import module 'Process' from module 'pbcore.util'; the following exception was raised:
No module named 'pbcore.util.Process'
looking for now-outdated files... none found
pickling environment... done
checking consistency... /build/python-pbcore-2.1.2+dfsg/doc/modules.rst: WARNING: document isn't included in any toctree
/build/python-pbcore-2.1.2+dfsg/doc/pbcore.data.datasets.rst: WARNING: document isn't included in any toctree
/build/python-pbcore-2.1.2+dfsg/doc/pbcore.io.align.rst: WARNING: document isn't included in any toctree
/build/python-pbcore-2.1.2+dfsg/doc/pbcore.io.dataset.rst: WARNING: document isn't included in any toctree
done
preparing documents... done
writing output... [ 9%] index
writing output... [ 18%] modules
writing output... [ 27%] pbcore
writing output... [ 36%] pbcore.chemistry
writing output... [ 45%] pbcore.data
writing output... [ 54%] pbcore.data.datasets
writing output... [ 63%] pbcore.io
writing output... [ 72%] pbcore.io.align
writing output... [ 81%] pbcore.io.dataset
writing output... [ 90%] pbcore.model
writing output... [100%] pbcore.util
WARNING: dot command 'dot' cannot be run (needed for graphviz output), check the graphviz_dot setting
generating indices... genindex py-modindex done
writing additional pages... search done
copying static files... done
copying extra files... done
dumping search index in English (code: en)... done
dumping object inventory... done
build succeeded, 9 warnings.
The HTML pages are in _build/html.
Build finished. The HTML pages are in _build/html.
make[3]: Leaving directory '/build/python-pbcore-2.1.2+dfsg/doc'
make[2]: Leaving directory '/build/python-pbcore-2.1.2+dfsg'
make[1]: Leaving directory '/build/python-pbcore-2.1.2+dfsg'
debian/rules override_dh_auto_test
make[1]: Entering directory '/build/python-pbcore-2.1.2+dfsg'
debian/rules:55: warning: overriding recipe for target 'override_dh_auto_clean'
debian/rules:28: warning: ignoring old recipe for target 'override_dh_auto_clean'
# we need to exclude tests requiring pbtestdata which is not packaged
mkdir -p /tmp/tests_avoid
mv `grep -l pbtestdata tests/*.py` /tmp/tests_avoid
# for whatever reason this test is failing as well - just skip it for the moment
mv tests/test_pbdataset_filters.py /tmp/tests_avoid
PYBUILD_SYSTEM=custom \
PYBUILD_TEST_ARGS="{interpreter} setup.py test" \
dh_auto_test
I: pybuild base:240: python3.11 setup.py test
/usr/lib/python3/dist-packages/setuptools/dist.py:775: UserWarning: Usage of dash-separated 'description-file' will not be supported in future versions. Please use the underscore name 'description_file' instead
warnings.warn(
running pytest
/usr/lib/python3/dist-packages/setuptools/dist.py:775: UserWarning: Usage of dash-separated 'description-file' will not be supported in future versions. Please use the underscore name 'description_file' instead
warnings.warn(
/usr/lib/python3/dist-packages/setuptools/command/easy_install.py:146: EasyInstallDeprecationWarning: easy_install command is deprecated. Use build and pip and other standards-based tools.
warnings.warn(
/usr/lib/python3/dist-packages/setuptools/command/install.py:34: SetuptoolsDeprecationWarning: setup.py install is deprecated. Use build and pip and other standards-based tools.
warnings.warn(
WARNING: Testing via this command is deprecated and will be removed in a future version. Users looking for a generic test entry point independent of test runner are encouraged to use tox.
running egg_info
writing pbcore.egg-info/PKG-INFO
writing dependency_links to pbcore.egg-info/dependency_links.txt
writing entry points to pbcore.egg-info/entry_points.txt
writing requirements to pbcore.egg-info/requires.txt
writing top-level names to pbcore.egg-info/top_level.txt
reading manifest file 'pbcore.egg-info/SOURCES.txt'
reading manifest template 'MANIFEST.in'
warning: no files found matching '*.txt'
warning: no directories found matching 'bin'
adding license file 'LICENSE'
writing manifest file 'pbcore.egg-info/SOURCES.txt'
running build_ext
============================= test session starts ==============================
platform linux -- Python 3.11.2, pytest-7.2.1, pluggy-1.0.0+repack -- /usr/bin/python3.11
cachedir: .pytest_cache
rootdir: /build/python-pbcore-2.1.2+dfsg, configfile: pytest.ini
plugins: xdist-3.1.0, cov-4.0.0
gw0 I / gw1 I / gw2 I / gw3 I / gw4 I / gw5 I / gw6 I / gw7 I / gw8 I / gw9 I / gw10 I / gw11 I / gw12 I / gw13 I / gw14 I
[gw0] linux Python 3.11.2 cwd: /build/python-pbcore-2.1.2+dfsg
[gw1] linux Python 3.11.2 cwd: /build/python-pbcore-2.1.2+dfsg
[gw2] linux Python 3.11.2 cwd: /build/python-pbcore-2.1.2+dfsg
[gw3] linux Python 3.11.2 cwd: /build/python-pbcore-2.1.2+dfsg
[gw4] linux Python 3.11.2 cwd: /build/python-pbcore-2.1.2+dfsg
[gw5] linux Python 3.11.2 cwd: /build/python-pbcore-2.1.2+dfsg
[gw6] linux Python 3.11.2 cwd: /build/python-pbcore-2.1.2+dfsg
[gw7] linux Python 3.11.2 cwd: /build/python-pbcore-2.1.2+dfsg
[gw8] linux Python 3.11.2 cwd: /build/python-pbcore-2.1.2+dfsg
[gw9] linux Python 3.11.2 cwd: /build/python-pbcore-2.1.2+dfsg
[gw10] linux Python 3.11.2 cwd: /build/python-pbcore-2.1.2+dfsg
[gw11] linux Python 3.11.2 cwd: /build/python-pbcore-2.1.2+dfsg
[gw12] linux Python 3.11.2 cwd: /build/python-pbcore-2.1.2+dfsg
[gw13] linux Python 3.11.2 cwd: /build/python-pbcore-2.1.2+dfsg
[gw14] linux Python 3.11.2 cwd: /build/python-pbcore-2.1.2+dfsg
[gw0] Python 3.11.2 (main, Mar 13 2023, 12:18:29) [GCC 12.2.0]
[gw1] Python 3.11.2 (main, Mar 13 2023, 12:18:29) [GCC 12.2.0]
[gw2] Python 3.11.2 (main, Mar 13 2023, 12:18:29) [GCC 12.2.0]
[gw3] Python 3.11.2 (main, Mar 13 2023, 12:18:29) [GCC 12.2.0]
[gw5] Python 3.11.2 (main, Mar 13 2023, 12:18:29) [GCC 12.2.0]
[gw4] Python 3.11.2 (main, Mar 13 2023, 12:18:29) [GCC 12.2.0]
[gw8] Python 3.11.2 (main, Mar 13 2023, 12:18:29) [GCC 12.2.0]
[gw6] Python 3.11.2 (main, Mar 13 2023, 12:18:29) [GCC 12.2.0]
[gw7] Python 3.11.2 (main, Mar 13 2023, 12:18:29) [GCC 12.2.0]
[gw9] Python 3.11.2 (main, Mar 13 2023, 12:18:29) [GCC 12.2.0]
[gw12] Python 3.11.2 (main, Mar 13 2023, 12:18:29) [GCC 12.2.0]
[gw10] Python 3.11.2 (main, Mar 13 2023, 12:18:29) [GCC 12.2.0]
[gw11] Python 3.11.2 (main, Mar 13 2023, 12:18:29) [GCC 12.2.0]
[gw13] Python 3.11.2 (main, Mar 13 2023, 12:18:29) [GCC 12.2.0]
[gw14] Python 3.11.2 (main, Mar 13 2023, 12:18:29) [GCC 12.2.0]
gw0 [140] / gw1 [140] / gw2 [140] / gw3 [140] / gw4 [140] / gw5 [140] / gw6 [140] / gw7 [140] / gw8 [140] / gw9 [140] / gw10 [140] / gw11 [140] / gw12 [140] / gw13 [140] / gw14 [140]
scheduling tests via LoadScopeScheduling
tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test__init__
tests/test_pbcore_io_AlnFileReaders.py::TestCCSBam::testBasicOperations
[gw5] [ 0%] SKIPPED tests/test_pbcore_io_AlnFileReaders.py::TestCCSBam::testBasicOperations
tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testBasicOperations
tests/test_pbcore_io_AlnFileReaders.py::TestMissingHeaderM5::test_retrieve_read_group_properties
tests/test_pbcore_io_AlnFileReaders.py::TestMultipleReadGroups::test_retrieve_read_group_properties
tests/test_pbcore_io_AlnFileReaders.py::TestEmptyBam::test_empty_bam_reads_in_range
[gw6] [ 1%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestMultipleReadGroups::test_retrieve_read_group_properties
tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testBasicOperations
[gw7] [ 2%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestMissingHeaderM5::test_retrieve_read_group_properties
tests/test_pbcore_io_AlnFileReaders.py::TestMultipleReadGroups::test_sample_names
tests/test_pbcore_io_FastaIO.py::TestFastaReader::test_readFasta
[gw11] [ 2%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test__init__
tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test__str__
[gw11] [ 3%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test__str__
tests/test_pbcore_io_AlnFileReaders.py::TestBarcodedBam::test_read_lima_demultiplexed_bam
[gw12] [ 4%] SKIPPED tests/test_pbcore_io_AlnFileReaders.py::TestBarcodedBam::test_read_lima_demultiplexed_bam
tests/test_pbcore_io_GffIO.py::TestGffWriter::test_writeHeader
[gw12] [ 5%] PASSED tests/test_pbcore_io_GffIO.py::TestGffWriter::test_writeHeader
[gw6] [ 5%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestMultipleReadGroups::test_sample_names
tests/test_pbcore_io_FofnIO.py::test_simple
tests/test_pbcore_io_GffIO.py::TestGff3Record::test_str
[gw7] [ 6%] PASSED tests/test_pbcore_io_GffIO.py::TestGff3Record::test_str
tests/test_pbcore_io_AlnFileReaders.py::TestCCSBam::testQStartEndUnavailable
[gw13] [ 7%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaReader::test_readFasta
tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test_fromString
[gw11] [ 7%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test_fromString
tests/test_pbcore_io_FastaIO.py::TestFastaReader::test_dosLineEndingsFasta
tests/test_pbcore_io_AlnFileReaders.py::TestTranscriptBam::test_transcript_set_support
[gw4] [ 8%] SKIPPED tests/test_pbcore_io_AlnFileReaders.py::TestTranscriptBam::test_transcript_set_support
tests/test_pbcore_io_FastqIO.py::TestFastqReader::test_readFastq1
[gw4] [ 9%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqReader::test_readFastq1
[gw8] [ 10%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestEmptyBam::test_empty_bam_reads_in_range
tests/test_pbcore_io_FastqIO.py::TestFastqWriter::test_writeFastq1
[gw8] [ 10%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqWriter::test_writeFastq1
tests/test_pbcore_io_FastqIO.py::TestFastqWriter::test_writeFastq2
[gw5] [ 11%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestCCSBam::testQStartEndUnavailable
tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test_reverse_complement1
tests/test_pbcore_io_FastaIO.py::TestFastaWriter::test_writeFasta1
[gw14] [ 12%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaWriter::test_writeFasta1
tests/test_pbcore_io_FastaIO.py::TestFastaWriter::test_writeFasta2
[gw14] [ 12%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaWriter::test_writeFasta2
[gw3] [ 13%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testBasicOperations
tests/test_pbcore_extract_bam_sequence.py::TestCase::test_reverse_complement
[gw1] [ 14%] PASSED tests/test_pbcore_extract_bam_sequence.py::TestCase::test_reverse_complement
tests/test_pbcore_io_FastqIO.py::TestQvConversion::testAsciiFromQvs
[gw1] [ 15%] PASSED tests/test_pbcore_io_FastqIO.py::TestQvConversion::testAsciiFromQvs
[gw13] [ 15%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaReader::test_dosLineEndingsFasta
tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testStrandOrientation
tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test__init__
[gw5] [ 16%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test__init__
tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test__str__
[gw5] [ 17%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test__str__
tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_fromString
[gw5] [ 17%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_fromString
tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_reverse_complement1
[gw11] [ 18%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test_reverse_complement1
tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test_reverse_complement2
[gw11] [ 19%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test_reverse_complement2
tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test_len
[gw11] [ 20%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test_len
tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test_eq
[gw11] [ 20%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test_eq
[gw3] [ 21%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testStrandOrientation
tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testReadName
[gw5] [ 22%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_reverse_complement1
tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_reverse_complement2
[gw3] [ 22%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testReadName
[gw5] [ 23%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_reverse_complement2
tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testAlignedRead
tests/test_pbcore_io_GffIO.py::TestGff3Record::test_modification
[gw7] [ 24%] PASSED tests/test_pbcore_io_GffIO.py::TestGff3Record::test_modification
tests/test_pbcore_io_GffIO.py::TestGff3Record::test_fromString
[gw7] [ 25%] PASSED tests/test_pbcore_io_GffIO.py::TestGff3Record::test_fromString
[gw6] [ 25%] PASSED tests/test_pbcore_io_FofnIO.py::test_simple
tests/test_pbcore_io_FofnIO.py::test_empty_lines
[gw6] [ 26%] PASSED tests/test_pbcore_io_FofnIO.py::test_empty_lines
tests/test_dataset_run_split.py::test
[gw0] [ 27%] SKIPPED tests/test_dataset_run_split.py::test
tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::testIteration
[gw0] [ 27%] PASSED tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::testIteration
tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::testAccessByName
[gw0] [ 28%] PASSED tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::testAccessByName
tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::testAccessById
[gw0] [ 29%] PASSED tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::testAccessById
tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::testAccessByPosition
[gw0] [ 30%] PASSED tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::testAccessByPosition
tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::testSlice
[gw0] [ 30%] PASSED tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::testSlice
tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::test_dosLineEndingsFasta
tests/test_pbcore_io_BlasrIO.py::test_m4
[gw10] [ 31%] PASSED tests/test_pbcore_io_BlasrIO.py::test_m4
tests/test_pbcore_io_BlasrIO.py::test_m5
[gw10] [ 32%] PASSED tests/test_pbcore_io_BlasrIO.py::test_m5
tests/test_pbcore_io_GffIO.py::TestGffSorting::test_merge_gffs
[gw10] [ 32%] PASSED tests/test_pbcore_io_GffIO.py::TestGffSorting::test_merge_gffs
tests/test_pbcore_io_GffIO.py::TestGffSorting::test_merge_gffs_sorted
[gw10] [ 33%] PASSED tests/test_pbcore_io_GffIO.py::TestGffSorting::test_merge_gffs_sorted
tests/test_pbcore_io_GffIO.py::TestGffSorting::test_sort_gff
[gw10] [ 34%] PASSED tests/test_pbcore_io_GffIO.py::TestGffSorting::test_sort_gff
tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_len
[gw5] [ 35%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_len
tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_eq
[gw5] [ 35%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_eq
[gw2] [ 36%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testBasicOperations
tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testStrandOrientation
[gw2] [ 37%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testStrandOrientation
tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testReadName
[gw2] [ 37%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testReadName
tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testAlignedRead
[gw2] [ 38%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testAlignedRead
tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testUnalignedRead
[gw2] [ 39%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testUnalignedRead
tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testAlignedReference
[gw2] [ 40%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testAlignedReference
tests/test_pbcore_io_GffIO.py::TestGffWriter::test_writeRecord
[gw12] [ 40%] PASSED tests/test_pbcore_io_GffIO.py::TestGffWriter::test_writeRecord
tests/test_pbcore_io_unaligned_bam.py::TestUnalignedBam::testInvalidOperations
[gw12] [ 41%] PASSED tests/test_pbcore_io_unaligned_bam.py::TestUnalignedBam::testInvalidOperations
[gw3] [ 42%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testAlignedRead
tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testUnalignedRead
[gw3] [ 42%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testUnalignedRead
tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testAlignedReference
[gw3] [ 43%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testAlignedReference
tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testUnalignedReference
[gw3] [ 44%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testUnalignedReference
tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testDeletionQV
[gw8] [ 45%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqWriter::test_writeFastq2
tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testUnalignedReference
[gw2] [ 45%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testUnalignedReference
tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testDeletionQV
tests/test_pbcore_io_VcfIO.py::TestVcfSorting::test_merge_vcfs_sorted
[gw13] [ 46%] PASSED tests/test_pbcore_io_VcfIO.py::TestVcfSorting::test_merge_vcfs_sorted
tests/test_pbcore_util.py::TestStatistics::test_accuracy_as_phred_qv
[gw13] [ 47%] PASSED tests/test_pbcore_util.py::TestStatistics::test_accuracy_as_phred_qv
[gw3] [ 47%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testDeletionQV
tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testTranscript
[gw0] [ 48%] PASSED tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::test_dosLineEndingsFasta
[gw3] [ 49%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testTranscript
tests/test_pbcore_io_AlnFileReaders.py::TestUpdatedChemistryMapping::test_load_updated_mapping
[gw9] [ 50%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestUpdatedChemistryMapping::test_load_updated_mapping
tests/test_pbcore_io_GffIO.py::TestGffReader::test_headers
[gw9] [ 50%] PASSED tests/test_pbcore_io_GffIO.py::TestGffReader::test_headers
tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testClippedAlignments
[gw3] [ 51%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testClippedAlignments
tests/test_pbcore_io_FastqIO.py::TestFastqWriter::test_writeFastq3
[gw8] [ 52%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqWriter::test_writeFastq3
tests/test_pbdataset_split.py::TestDataSetSplit::test_split
tests/test_pbcore_io_FastqIO.py::TestFastqReader::test_readFastq2
[gw4] [ 52%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqReader::test_readFastq2
tests/test_pbcore_util_sequences.py::TestReverseComplement::test_reverse
[gw4] [ 53%] PASSED tests/test_pbcore_util_sequences.py::TestReverseComplement::test_reverse
tests/test_pbcore_util_sequences.py::TestReverseComplement::test_complement
[gw4] [ 54%] PASSED tests/test_pbcore_util_sequences.py::TestReverseComplement::test_complement
tests/test_pbcore_util_sequences.py::TestReverseComplement::test_reverseComplement
tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_not_equal
[gw5] [ 55%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_not_equal
tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testReadsInRange
[gw2] [ 55%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testDeletionQV
[gw4] [ 56%] PASSED tests/test_pbcore_util_sequences.py::TestReverseComplement::test_reverseComplement
tests/test_pbcore_util_sequences.py::TestReverseComplement::test_iupac
[gw4] [ 57%] PASSED tests/test_pbcore_util_sequences.py::TestReverseComplement::test_iupac
tests/test_pbcore_util_sequences.py::TestReverseComplement::test_complement_error
[gw4] [ 57%] PASSED tests/test_pbcore_util_sequences.py::TestReverseComplement::test_complement_error
tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test_not_equal
[gw11] [ 58%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test_not_equal
tests/test_pbcore_io_lossless_bam.py::TestCase::test_1
[gw14] [ 59%] SKIPPED tests/test_pbcore_io_lossless_bam.py::TestCase::test_1
tests/test_pbdataset_utils.py::TestDataSetUtils::test_get_dataset_uuid
[gw14] [ 60%] PASSED tests/test_pbdataset_utils.py::TestDataSetUtils::test_get_dataset_uuid
tests/test_pbdataset_utils.py::TestDataSetUtils::test_get_dataset_metatype
tests/test_pbcore_io_FastqIO.py::TestQvConversion::testQvsFromAscii
[gw1] [ 60%] PASSED tests/test_pbcore_io_FastqIO.py::TestQvConversion::testQvsFromAscii
tests/test_pbindex.py::TestPbIndex::test_pbindex_bam_consistency
tests/test_pbcore_util.py::TestStatistics::test_phred_qv_as_accuracy
[gw13] [ 61%] PASSED tests/test_pbcore_util.py::TestStatistics::test_phred_qv_as_accuracy
tests/test_pbcore_io_FofnIO.py::test_absolutifying
[gw6] [ 62%] PASSED tests/test_pbcore_io_FofnIO.py::test_absolutifying
tests/test_pbcore_io_GffIO.py::TestGff3Record::test_get
[gw7] [ 62%] PASSED tests/test_pbcore_io_GffIO.py::TestGff3Record::test_get
[gw14] [ 63%] PASSED tests/test_pbdataset_utils.py::TestDataSetUtils::test_get_dataset_metatype
tests/test_pbdataset_utils.py::TestDataSetUtils::test_dsIdToSuffix
tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testTranscript
[gw2] [ 64%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testTranscript
tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testClippedAlignments
[gw2] [ 65%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testClippedAlignments
tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testReadsInRange
tests/test_pbcore_io_GffIO.py::TestGffSorting::test_empty_file
[gw14] [ 65%] PASSED tests/test_pbdataset_utils.py::TestDataSetUtils::test_dsIdToSuffix
tests/test_pbcore_io_unaligned_bam.py::TestUnalignedBam::testIpd
[gw12] [ 66%] PASSED tests/test_pbcore_io_unaligned_bam.py::TestUnalignedBam::testIpd
[gw1] [ 67%] PASSED tests/test_pbindex.py::TestPbIndex::test_pbindex_bam_consistency
tests/test_pbindex.py::TestPbIndex::test_pbindex_streaming
[gw1] [ 67%] PASSED tests/test_pbindex.py::TestPbIndex::test_pbindex_streaming
tests/test_pbindex.py::TestPbIndex::test_pbindex_streaming_entire
tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::test_readWeirdFastaIndex
[gw0] [ 68%] PASSED tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::test_readWeirdFastaIndex
tests/test_pbdataset_utils.py::TestDataSetUtils::test_divideKeys_keysToRanges
[gw14] [ 69%] PASSED tests/test_pbdataset_utils.py::TestDataSetUtils::test_divideKeys_keysToRanges
tests/test_pbcore_util_sequences.py::TestReverseComplement::test_reverse_complement_error
[gw4] [ 70%] PASSED tests/test_pbcore_util_sequences.py::TestReverseComplement::test_reverse_complement_error
[gw1] [ 70%] PASSED tests/test_pbindex.py::TestPbIndex::test_pbindex_streaming_entire
tests/test_pbindex.py::TestPbIndex::test_pbindex_with_zmw_index
[gw1] [ 71%] PASSED tests/test_pbindex.py::TestPbIndex::test_pbindex_with_zmw_index
tests/test_pbcore_io_GffIO.py::TestGffReader::test__iter__
[gw9] [ 72%] PASSED tests/test_pbcore_io_GffIO.py::TestGffReader::test__iter__
[gw10] [ 72%] PASSED tests/test_pbcore_io_GffIO.py::TestGffSorting::test_empty_file
[gw8] [ 73%] PASSED tests/test_pbdataset_split.py::TestDataSetSplit::test_split
tests/test_pbdataset_split.py::TestDataSetSplit::test_split_zmws
[gw3] [ 74%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testReadsInRange
tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testReadGroupTable
[gw3] [ 75%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testReadGroupTable
tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testSequencingChemistry
[gw3] [ 75%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testSequencingChemistry
tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testMapQV
[gw3] [ 76%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testMapQV
tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testHoleNumbers
[gw3] [ 77%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testHoleNumbers
tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testErrorCounts
[gw3] [ 77%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testErrorCounts
tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testReadsByName
[gw3] [ 78%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testReadsByName
tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::test_empty_bam
[gw3] [ 79%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::test_empty_bam
tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::test_alignment_identity
[gw3] [ 80%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::test_alignment_identity
tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::test_alignment_identity_unindexed
[gw2] [ 80%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testReadsInRange
tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testReadGroupTable
[gw2] [ 81%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testReadGroupTable
tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testSequencingChemistry
[gw2] [ 82%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testSequencingChemistry
tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testSpecVersion
[gw2] [ 82%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testSpecVersion
tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testReadScore
[gw2] [ 83%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testReadScore
tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::test_sample_name_default
[gw3] [ 84%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::test_alignment_identity_unindexed
[gw2] [ 85%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::test_sample_name_default
tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::test_library_name_default
[gw2] [ 85%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::test_library_name_default
[gw8] [ 86%] PASSED tests/test_pbdataset_split.py::TestDataSetSplit::test_split_zmws
tests/test_pbdataset_split.py::TestDataSetSplit::test_split_zmws_targetsize
[gw8] [ 87%] PASSED tests/test_pbdataset_split.py::TestDataSetSplit::test_split_zmws_targetsize
tests/test_pbdataset_split.py::TestDataSetSplit::test_large_split_zmws
[gw8] [ 87%] SKIPPED tests/test_pbdataset_split.py::TestDataSetSplit::test_large_split_zmws
tests/test_pbdataset_split.py::TestDataSetSplit::test_multi_movie_split_zmws
[gw8] [ 88%] SKIPPED tests/test_pbdataset_split.py::TestDataSetSplit::test_multi_movie_split_zmws
tests/test_pbdataset_split.py::TestDataSetSplit::test_multi_movie_split_zmws_existing_simple_filters
[gw8] [ 89%] SKIPPED tests/test_pbdataset_split.py::TestDataSetSplit::test_multi_movie_split_zmws_existing_simple_filters
tests/test_pbdataset_split.py::TestDataSetSplit::test_multi_movie_split_zmws_existing_filters
[gw8] [ 90%] SKIPPED tests/test_pbdataset_split.py::TestDataSetSplit::test_multi_movie_split_zmws_existing_filters
tests/test_pbdataset_split.py::TestDataSetSplit::test_movie_split
[gw8] [ 90%] SKIPPED tests/test_pbdataset_split.py::TestDataSetSplit::test_movie_split
tests/test_pbdataset_split.py::TestDataSetSplit::test_split_references
[gw8] [ 91%] SKIPPED tests/test_pbdataset_split.py::TestDataSetSplit::test_split_references
tests/test_pbdataset_split.py::TestDataSetSplit::test_multi_movie_split_zmws_with_existing_movie_filter
[gw8] [ 92%] SKIPPED tests/test_pbdataset_split.py::TestDataSetSplit::test_multi_movie_split_zmws_with_existing_movie_filter
tests/test_pbdataset_split.py::TestDataSetSplit::test_split_by_contigs_presplit
[gw8] [ 92%] SKIPPED tests/test_pbdataset_split.py::TestDataSetSplit::test_split_by_contigs_presplit
tests/test_pbdataset_split.py::TestDataSetSplit::test_split_by_contigs_with_split_and_maxChunks
[gw8] [ 93%] PASSED tests/test_pbdataset_split.py::TestDataSetSplit::test_split_by_contigs_with_split_and_maxChunks
tests/test_pbdataset_split.py::TestDataSetSplit::test_split_by_contigs_with_split
[gw8] [ 94%] PASSED tests/test_pbdataset_split.py::TestDataSetSplit::test_split_by_contigs_with_split
tests/test_pbdataset_split.py::TestDataSetSplit::test_refWindows
[gw8] [ 95%] PASSED tests/test_pbdataset_split.py::TestDataSetSplit::test_refWindows
tests/test_pbdataset_split.py::TestDataSetSplit::test_huge_zmw_split
[gw8] [ 95%] SKIPPED tests/test_pbdataset_split.py::TestDataSetSplit::test_huge_zmw_split
tests/test_pbdataset_split.py::TestDataSetSplit::test_subreadset_split_metadata_element_name
[gw8] [ 96%] PASSED tests/test_pbdataset_split.py::TestDataSetSplit::test_subreadset_split_metadata_element_name
tests/test_pbdataset_split.py::TestDataSetSplit::test_contigset_split
[gw8] [ 97%] PASSED tests/test_pbdataset_split.py::TestDataSetSplit::test_contigset_split
tests/test_pbdataset_split.py::TestDataSetSplit::test_isBarcoded
[gw8] [ 97%] SKIPPED tests/test_pbdataset_split.py::TestDataSetSplit::test_isBarcoded
tests/test_pbdataset_split.py::TestDataSetSplit::test_barcode_split_cornercases
[gw8] [ 98%] SKIPPED tests/test_pbdataset_split.py::TestDataSetSplit::test_barcode_split_cornercases
tests/test_pbdataset_split.py::TestDataSetSplit::test_barcode_split_maxChunks
[gw8] [ 99%] SKIPPED tests/test_pbdataset_split.py::TestDataSetSplit::test_barcode_split_maxChunks
tests/test_pbdataset_split.py::TestDataSetSplit::test_split_read_groups
[gw8] [100%] SKIPPED tests/test_pbdataset_split.py::TestDataSetSplit::test_split_read_groups
=============================== warnings summary ===============================
tests/test_pbcore_io_FastqIO.py: 11 warnings
/build/python-pbcore-2.1.2+dfsg/pbcore/io/FastqIO.py:239: DeprecationWarning: tostring() is deprecated. Use tobytes() instead.
return (np.clip(a, 0, 93).astype(np.uint8) + 33).tostring().decode("ascii")
tests/test_pbcore_extract_bam_sequence.py: 1 warning
tests/test_pbcore_io_AlnFileReaders.py: 118 warnings
/build/python-pbcore-2.1.2+dfsg/pbcore/io/align/BamAlignment.py:356: DeprecationWarning: tostring() is deprecated. Use tobytes() instead.
return _gusfieldTrans[uc].tostring().decode("ascii")
tests/test_pbcore_io_AlnFileReaders.py: 28 warnings
/build/python-pbcore-2.1.2+dfsg/pbcore/io/align/BamAlignment.py:583: DeprecationWarning: tostring() is deprecated. Use tobytes() instead.
return r.tostring().decode("ascii")
tests/test_pbcore_io_AlnFileReaders.py: 20 warnings
/build/python-pbcore-2.1.2+dfsg/pbcore/io/align/BamAlignment.py:368: DeprecationWarning: tostring() is deprecated. Use tobytes() instead.
return y.tostring().decode("ascii")
tests/test_pbcore_io_AlnFileReaders.py: 14 warnings
/build/python-pbcore-2.1.2+dfsg/pbcore/io/align/BamAlignment.py:535: DeprecationWarning: NumPy will stop allowing conversion of out-of-bound Python integers to integer arrays. The conversion of -1 to uint8 will fail in the future.
For the old behavior, usually:
np.array(value).astype(dtype)`
will give the desired result (the cast overflows).
gapCode = data.dtype.type(-1)
tests/test_pbdataset_split.py: 12 warnings
/build/python-pbcore-2.1.2+dfsg/pbcore/io/align/_BamSupport.py:66: DeprecationWarning: NumPy will stop allowing conversion of out-of-bound Python integers to integer arrays. The conversion of 3379013067 to int32 will fail in the future.
For the old behavior, usually:
np.array(value).astype(dtype)`
will give the desired result (the cast overflows).
return np.int32(int(rgIdString.split("/")[0], 16))
tests/test_pbdataset_split.py::TestDataSetSplit::test_split
tests/test_pbdataset_split.py::TestDataSetSplit::test_split
tests/test_pbdataset_split.py::TestDataSetSplit::test_split
tests/test_pbdataset_split.py::TestDataSetSplit::test_split
tests/test_pbdataset_split.py::TestDataSetSplit::test_split
tests/test_pbdataset_split.py::TestDataSetSplit::test_split
tests/test_pbdataset_split.py::TestDataSetSplit::test_subreadset_split_metadata_element_name
tests/test_pbdataset_split.py::TestDataSetSplit::test_subreadset_split_metadata_element_name
/build/python-pbcore-2.1.2+dfsg/pbcore/io/align/_BamSupport.py:66: DeprecationWarning: NumPy will stop allowing conversion of out-of-bound Python integers to integer arrays. The conversion of 3844501414 to int32 will fail in the future.
For the old behavior, usually:
np.array(value).astype(dtype)`
will give the desired result (the cast overflows).
return np.int32(int(rgIdString.split("/")[0], 16))
-- Docs: https://docs.pytest.org/en/stable/how-to/capture-warnings.html
------ generated xml file: /build/python-pbcore-2.1.2+dfsg/nosetests.xml -------
---------- coverage: platform linux, python 3.11.2-final-0 -----------
Coverage XML written to file coverage.xml
============================= slowest 20 durations =============================
0.71s call tests/test_pbdataset_split.py::TestDataSetSplit::test_split_by_contigs_with_split_and_maxChunks
0.70s call tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testReadsInRange
0.57s call tests/test_pbdataset_split.py::TestDataSetSplit::test_split_by_contigs_with_split
0.47s call tests/test_pbdataset_split.py::TestDataSetSplit::test_split_zmws
0.45s call tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testReadsInRange
0.41s call tests/test_pbdataset_split.py::TestDataSetSplit::test_split
0.37s call tests/test_pbdataset_split.py::TestDataSetSplit::test_split_zmws_targetsize
0.35s call tests/test_pbdataset_split.py::TestDataSetSplit::test_contigset_split
0.15s call tests/test_pbindex.py::TestPbIndex::test_pbindex_bam_consistency
0.13s call tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::test_alignment_identity_unindexed
0.11s setup tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testBasicOperations
0.10s setup tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testBasicOperations
0.08s call tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::test_dosLineEndingsFasta
0.07s call tests/test_pbdataset_split.py::TestDataSetSplit::test_refWindows
0.07s call tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::test_alignment_identity
0.05s call tests/test_pbdataset_split.py::TestDataSetSplit::test_subreadset_split_metadata_element_name
0.04s call tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testHoleNumbers
0.04s call tests/test_pbcore_io_FastaIO.py::TestFastaReader::test_dosLineEndingsFasta
0.04s call tests/test_pbdataset_utils.py::TestDataSetUtils::test_get_dataset_uuid
0.03s call tests/test_pbdataset_utils.py::TestDataSetUtils::test_get_dataset_metatype
================ 122 passed, 18 skipped, 212 warnings in 13.91s ================
# copy working test data into doc dir as user examples
mkdir -p _tmp/usr/share/doc/python3-pbcore
cp -a tests _tmp/usr/share/doc/python3-pbcore
find _tmp -type d -name __pycache__ | xargs rm -rf
# move back ignored tests
mv /tmp/tests_avoid/* tests
rmdir /tmp/tests_avoid
make[1]: Leaving directory '/build/python-pbcore-2.1.2+dfsg'
create-stamp debian/debhelper-build-stamp
dh_testroot -O--buildsystem=pybuild
dh_prep -O--buildsystem=pybuild
dh_auto_install -O--buildsystem=pybuild
I: pybuild base:240: /usr/bin/python3 setup.py install --root /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore
/usr/lib/python3/dist-packages/setuptools/dist.py:775: UserWarning: Usage of dash-separated 'description-file' will not be supported in future versions. Please use the underscore name 'description_file' instead
warnings.warn(
running install
/usr/lib/python3/dist-packages/setuptools/command/install.py:34: SetuptoolsDeprecationWarning: setup.py install is deprecated. Use build and pip and other standards-based tools.
warnings.warn(
running build
running build_py
running egg_info
writing pbcore.egg-info/PKG-INFO
writing dependency_links to pbcore.egg-info/dependency_links.txt
writing entry points to pbcore.egg-info/entry_points.txt
writing requirements to pbcore.egg-info/requires.txt
writing top-level names to pbcore.egg-info/top_level.txt
reading manifest file 'pbcore.egg-info/SOURCES.txt'
reading manifest template 'MANIFEST.in'
warning: no files found matching '*.txt'
warning: no directories found matching 'bin'
adding license file 'LICENSE'
writing manifest file 'pbcore.egg-info/SOURCES.txt'
/usr/lib/python3/dist-packages/setuptools/command/build_py.py:202: SetuptoolsDeprecationWarning: Installing 'pbcore.__pycache__' as data is deprecated, please list it in `packages`.
!!
############################
# Package would be ignored #
############################
Python recognizes 'pbcore.__pycache__' as an importable package,
but it is not listed in the `packages` configuration of setuptools.
'pbcore.__pycache__' has been automatically added to the distribution only
because it may contain data files, but this behavior is likely to change
in future versions of setuptools (and therefore is considered deprecated).
Please make sure that 'pbcore.__pycache__' is included as a package by using
the `packages` configuration field or the proper discovery methods
(for example by using `find_namespace_packages(...)`/`find_namespace:`
instead of `find_packages(...)`/`find:`).
You can read more about "package discovery" and "data files" on setuptools
documentation page.
!!
check.warn(importable)
/usr/lib/python3/dist-packages/setuptools/command/build_py.py:202: SetuptoolsDeprecationWarning: Installing 'pbcore.chemistry.__pycache__' as data is deprecated, please list it in `packages`.
!!
############################
# Package would be ignored #
############################
Python recognizes 'pbcore.chemistry.__pycache__' as an importable package,
but it is not listed in the `packages` configuration of setuptools.
'pbcore.chemistry.__pycache__' has been automatically added to the distribution only
because it may contain data files, but this behavior is likely to change
in future versions of setuptools (and therefore is considered deprecated).
Please make sure that 'pbcore.chemistry.__pycache__' is included as a package by using
the `packages` configuration field or the proper discovery methods
(for example by using `find_namespace_packages(...)`/`find_namespace:`
instead of `find_packages(...)`/`find:`).
You can read more about "package discovery" and "data files" on setuptools
documentation page.
!!
check.warn(importable)
/usr/lib/python3/dist-packages/setuptools/command/build_py.py:202: SetuptoolsDeprecationWarning: Installing 'pbcore.chemistry.resources' as data is deprecated, please list it in `packages`.
!!
############################
# Package would be ignored #
############################
Python recognizes 'pbcore.chemistry.resources' as an importable package,
but it is not listed in the `packages` configuration of setuptools.
'pbcore.chemistry.resources' has been automatically added to the distribution only
because it may contain data files, but this behavior is likely to change
in future versions of setuptools (and therefore is considered deprecated).
Please make sure that 'pbcore.chemistry.resources' is included as a package by using
the `packages` configuration field or the proper discovery methods
(for example by using `find_namespace_packages(...)`/`find_namespace:`
instead of `find_packages(...)`/`find:`).
You can read more about "package discovery" and "data files" on setuptools
documentation page.
!!
check.warn(importable)
/usr/lib/python3/dist-packages/setuptools/command/build_py.py:202: SetuptoolsDeprecationWarning: Installing 'pbcore.data.__pycache__' as data is deprecated, please list it in `packages`.
!!
############################
# Package would be ignored #
############################
Python recognizes 'pbcore.data.__pycache__' as an importable package,
but it is not listed in the `packages` configuration of setuptools.
'pbcore.data.__pycache__' has been automatically added to the distribution only
because it may contain data files, but this behavior is likely to change
in future versions of setuptools (and therefore is considered deprecated).
Please make sure that 'pbcore.data.__pycache__' is included as a package by using
the `packages` configuration field or the proper discovery methods
(for example by using `find_namespace_packages(...)`/`find_namespace:`
instead of `find_packages(...)`/`find:`).
You can read more about "package discovery" and "data files" on setuptools
documentation page.
!!
check.warn(importable)
/usr/lib/python3/dist-packages/setuptools/command/build_py.py:202: SetuptoolsDeprecationWarning: Installing 'pbcore.data.datasets.__pycache__' as data is deprecated, please list it in `packages`.
!!
############################
# Package would be ignored #
############################
Python recognizes 'pbcore.data.datasets.__pycache__' as an importable package,
but it is not listed in the `packages` configuration of setuptools.
'pbcore.data.datasets.__pycache__' has been automatically added to the distribution only
because it may contain data files, but this behavior is likely to change
in future versions of setuptools (and therefore is considered deprecated).
Please make sure that 'pbcore.data.datasets.__pycache__' is included as a package by using
the `packages` configuration field or the proper discovery methods
(for example by using `find_namespace_packages(...)`/`find_namespace:`
instead of `find_packages(...)`/`find:`).
You can read more about "package discovery" and "data files" on setuptools
documentation page.
!!
check.warn(importable)
/usr/lib/python3/dist-packages/setuptools/command/build_py.py:202: SetuptoolsDeprecationWarning: Installing 'pbcore.io.__pycache__' as data is deprecated, please list it in `packages`.
!!
############################
# Package would be ignored #
############################
Python recognizes 'pbcore.io.__pycache__' as an importable package,
but it is not listed in the `packages` configuration of setuptools.
'pbcore.io.__pycache__' has been automatically added to the distribution only
because it may contain data files, but this behavior is likely to change
in future versions of setuptools (and therefore is considered deprecated).
Please make sure that 'pbcore.io.__pycache__' is included as a package by using
the `packages` configuration field or the proper discovery methods
(for example by using `find_namespace_packages(...)`/`find_namespace:`
instead of `find_packages(...)`/`find:`).
You can read more about "package discovery" and "data files" on setuptools
documentation page.
!!
check.warn(importable)
/usr/lib/python3/dist-packages/setuptools/command/build_py.py:202: SetuptoolsDeprecationWarning: Installing 'pbcore.io.align.__pycache__' as data is deprecated, please list it in `packages`.
!!
############################
# Package would be ignored #
############################
Python recognizes 'pbcore.io.align.__pycache__' as an importable package,
but it is not listed in the `packages` configuration of setuptools.
'pbcore.io.align.__pycache__' has been automatically added to the distribution only
because it may contain data files, but this behavior is likely to change
in future versions of setuptools (and therefore is considered deprecated).
Please make sure that 'pbcore.io.align.__pycache__' is included as a package by using
the `packages` configuration field or the proper discovery methods
(for example by using `find_namespace_packages(...)`/`find_namespace:`
instead of `find_packages(...)`/`find:`).
You can read more about "package discovery" and "data files" on setuptools
documentation page.
!!
check.warn(importable)
/usr/lib/python3/dist-packages/setuptools/command/build_py.py:202: SetuptoolsDeprecationWarning: Installing 'pbcore.io.dataset.__pycache__' as data is deprecated, please list it in `packages`.
!!
############################
# Package would be ignored #
############################
Python recognizes 'pbcore.io.dataset.__pycache__' as an importable package,
but it is not listed in the `packages` configuration of setuptools.
'pbcore.io.dataset.__pycache__' has been automatically added to the distribution only
because it may contain data files, but this behavior is likely to change
in future versions of setuptools (and therefore is considered deprecated).
Please make sure that 'pbcore.io.dataset.__pycache__' is included as a package by using
the `packages` configuration field or the proper discovery methods
(for example by using `find_namespace_packages(...)`/`find_namespace:`
instead of `find_packages(...)`/`find:`).
You can read more about "package discovery" and "data files" on setuptools
documentation page.
!!
check.warn(importable)
/usr/lib/python3/dist-packages/setuptools/command/build_py.py:202: SetuptoolsDeprecationWarning: Installing 'pbcore.util.__pycache__' as data is deprecated, please list it in `packages`.
!!
############################
# Package would be ignored #
############################
Python recognizes 'pbcore.util.__pycache__' as an importable package,
but it is not listed in the `packages` configuration of setuptools.
'pbcore.util.__pycache__' has been automatically added to the distribution only
because it may contain data files, but this behavior is likely to change
in future versions of setuptools (and therefore is considered deprecated).
Please make sure that 'pbcore.util.__pycache__' is included as a package by using
the `packages` configuration field or the proper discovery methods
(for example by using `find_namespace_packages(...)`/`find_namespace:`
instead of `find_packages(...)`/`find:`).
You can read more about "package discovery" and "data files" on setuptools
documentation page.
!!
check.warn(importable)
copying pbcore/__pycache__/__init__.cpython-311.pyc -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/__pycache__
copying pbcore/__pycache__/sequence.cpython-311.pyc -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/__pycache__
copying pbcore/util/__pycache__/__init__.cpython-311.pyc -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/util/__pycache__
copying pbcore/util/__pycache__/decorators.cpython-311.pyc -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/util/__pycache__
copying pbcore/util/__pycache__/statistics.cpython-311.pyc -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/util/__pycache__
copying pbcore/io/__pycache__/FastaIO.cpython-311.pyc -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/__pycache__
copying pbcore/io/__pycache__/FastqIO.cpython-311.pyc -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/__pycache__
copying pbcore/io/__pycache__/FofnIO.cpython-311.pyc -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/__pycache__
copying pbcore/io/__pycache__/GffIO.cpython-311.pyc -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/__pycache__
copying pbcore/io/__pycache__/VcfIO.cpython-311.pyc -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/__pycache__
copying pbcore/io/__pycache__/__init__.cpython-311.pyc -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/__pycache__
copying pbcore/io/__pycache__/_utils.cpython-311.pyc -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/__pycache__
copying pbcore/io/__pycache__/base.cpython-311.pyc -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/__pycache__
copying pbcore/io/__pycache__/opener.cpython-311.pyc -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/__pycache__
copying pbcore/data/__pycache__/__init__.cpython-311.pyc -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/__pycache__
copying pbcore/chemistry/__pycache__/__init__.cpython-311.pyc -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/chemistry/__pycache__
copying pbcore/chemistry/__pycache__/chemistry.cpython-311.pyc -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/chemistry/__pycache__
copying pbcore/io/dataset/__pycache__/DataSetErrors.cpython-311.pyc -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/dataset/__pycache__
copying pbcore/io/dataset/__pycache__/DataSetIO.cpython-311.pyc -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/dataset/__pycache__
copying pbcore/io/dataset/__pycache__/DataSetMembers.cpython-311.pyc -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/dataset/__pycache__
copying pbcore/io/dataset/__pycache__/DataSetMetaTypes.cpython-311.pyc -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/dataset/__pycache__
copying pbcore/io/dataset/__pycache__/DataSetReader.cpython-311.pyc -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/dataset/__pycache__
copying pbcore/io/dataset/__pycache__/DataSetUtils.cpython-311.pyc -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/dataset/__pycache__
copying pbcore/io/dataset/__pycache__/DataSetValidator.cpython-311.pyc -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/dataset/__pycache__
copying pbcore/io/dataset/__pycache__/DataSetWriter.cpython-311.pyc -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/dataset/__pycache__
copying pbcore/io/dataset/__pycache__/__init__.cpython-311.pyc -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/dataset/__pycache__
copying pbcore/io/dataset/__pycache__/run_split.cpython-311.pyc -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/dataset/__pycache__
copying pbcore/io/dataset/__pycache__/utils.cpython-311.pyc -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/dataset/__pycache__
copying pbcore/io/align/__pycache__/BamAlignment.cpython-311.pyc -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/align/__pycache__
copying pbcore/io/align/__pycache__/BamIO.cpython-311.pyc -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/align/__pycache__
copying pbcore/io/align/__pycache__/BlasrIO.cpython-311.pyc -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/align/__pycache__
copying pbcore/io/align/__pycache__/PacBioBamIndex.cpython-311.pyc -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/align/__pycache__
copying pbcore/io/align/__pycache__/_AlignmentMixin.cpython-311.pyc -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/align/__pycache__
copying pbcore/io/align/__pycache__/_BamSupport.cpython-311.pyc -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/align/__pycache__
copying pbcore/io/align/__pycache__/__init__.cpython-311.pyc -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/align/__pycache__
copying pbcore/data/datasets/__pycache__/__init__.cpython-311.pyc -> /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets/__pycache__
running install_lib
creating /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore
creating /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr
creating /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib
creating /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11
creating /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages
creating /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore
creating /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/__pycache__
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/__pycache__/sequence.cpython-311.pyc -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/__pycache__
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/__pycache__/__init__.cpython-311.pyc -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/__pycache__
creating /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/chemistry
creating /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/chemistry/__pycache__
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/chemistry/__pycache__/chemistry.cpython-311.pyc -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/chemistry/__pycache__
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/chemistry/__pycache__/__init__.cpython-311.pyc -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/chemistry/__pycache__
creating /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/chemistry/resources
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/chemistry/resources/mapping.xml -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/chemistry/resources
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/chemistry/__init__.py -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/chemistry
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/chemistry/chemistry.py -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/chemistry
creating /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data
creating /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data/__pycache__
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/__pycache__/__init__.cpython-311.pyc -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data/__pycache__
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/weird.fa.fai -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/weird.fa -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/variants.gff -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/m140905_042212_sidney_c100564852550000001823085912221377_s1_X0.subreads.bam.pbi -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/m140905_042212_sidney_c100564852550000001823085912221377_s1_X0.subreads.bam -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/m140905_042212_sidney_c100564852550000001823085912221377_s1_X0.scraps.bam.pbi -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/m140905_042212_sidney_c100564852550000001823085912221377_s1_X0.scraps.bam -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/m140905_042212_sidney_c100564852550000001823085912221377_s1_X0.aligned_subreads.bam.pbi -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/m140905_042212_sidney_c100564852550000001823085912221377_s1_X0.aligned_subreads.bam.bai -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/m140905_042212_sidney_c100564852550000001823085912221377_s1_X0.aligned_subreads.bam -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/m130727_114215_42211_c100569412550000001823090301191423_s1_p0.ccs.bam.pbi -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/m130727_114215_42211_c100569412550000001823090301191423_s1_p0.ccs.bam.bai -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/m130727_114215_42211_c100569412550000001823090301191423_s1_p0.ccs.bam -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/lambdaNEB.fa.fai -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/lambdaNEB.fa -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/empty2.bam.pbi -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/empty2.bam -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/empty.ccs.bam.pbi -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/empty.ccs.bam -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/empty.aligned_subreads.bam.pbi -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/empty.aligned_subreads.bam -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/chemistry.xml -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/blasr-output.m5 -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/blasr-output.m4 -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/barcodes-ed65-450.fasta.fai -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/barcodes-ed65-450.fasta -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/Fluidigm_human_amplicons_tiny.fasta -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/Fluidigm_human_amplicons.fasta.fai -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/Fluidigm_human_amplicons.fasta -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data
creating /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data/datasets
creating /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data/datasets/__pycache__
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets/__pycache__/__init__.cpython-311.pyc -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data/datasets/__pycache__
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets/subreadSetWithStats.xml -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data/datasets
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets/subread.dataset.xml -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data/datasets
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets/reference.dataset.xml -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data/datasets
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets/pbalchemysim1.subreadset.xml -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data/datasets
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets/pbalchemysim1.subreads.bam.pbi -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data/datasets
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets/pbalchemysim1.subreads.bam.bai -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data/datasets
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets/pbalchemysim1.subreads.bam -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data/datasets
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets/pbalchemysim1.pbalign.bam.pbi -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data/datasets
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets/pbalchemysim1.pbalign.bam.bai -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data/datasets
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets/pbalchemysim1.pbalign.bam -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data/datasets
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets/pbalchemysim1.alignmentset.xml -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data/datasets
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets/pbalchemysim0.subreadset.xml -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data/datasets
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets/pbalchemysim0.subreads.bam.pbi -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data/datasets
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets/pbalchemysim0.subreads.bam.bai -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data/datasets
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets/pbalchemysim0.subreads.bam -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data/datasets
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets/pbalchemysim0.referenceset.xml -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data/datasets
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets/pbalchemysim0.reference.fasta.fai -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data/datasets
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets/pbalchemysim0.reference.fasta -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data/datasets
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets/pbalchemysim0.pbalign.bam.pbi -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data/datasets
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets/pbalchemysim0.pbalign.bam.bai -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data/datasets
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets/pbalchemysim0.pbalign.bam -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data/datasets
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets/pbalchemysim0.alignmentset.xml -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data/datasets
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets/pbalchemysim0.alignmentset.chunk1contigs.xml -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data/datasets
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets/pbalchemysim0.alignmentset.chunk0contigs.xml -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data/datasets
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets/pbalchemysim.alignmentset.xml -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data/datasets
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets/m150616_053259_ethan_c100710482550000001823136404221563_s1_p0.sts.xml -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data/datasets
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets/m150430_142051_Mon_p1_b25.sts.xml -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data/datasets
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets/m140905_042212_sidney_c100564852550000001823085912221377_s1_X0.subreads.fake_bc.bam.pbi -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data/datasets
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets/m140905_042212_sidney_c100564852550000001823085912221377_s1_X0.subreads.fake_bc.bam.bai -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data/datasets
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets/m140905_042212_sidney_c100564852550000001823085912221377_s1_X0.subreads.fake_bc.bam -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data/datasets
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets/lambda.referenceset.xml -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data/datasets
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets/lambda.alignmentset.xml -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data/datasets
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets/fofn.fofn -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data/datasets
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets/empty_lambda.aligned.bam.pbi -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data/datasets
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets/empty_lambda.aligned.bam.bai -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data/datasets
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets/empty_lambda.aligned.bam -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data/datasets
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets/contig.dataset.xml -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data/datasets
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets/ccsread.dataset.xml -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data/datasets
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets/ccsaligned.dataset.xml -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data/datasets
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets/barcode.dataset.xml -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data/datasets
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets/alignment.dataset.xml -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data/datasets
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets/CollectionMetadata.xml -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data/datasets
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets/__init__.py -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data/datasets
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/__init__.py -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data
creating /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io
creating /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io/__pycache__
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/__pycache__/opener.cpython-311.pyc -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io/__pycache__
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/__pycache__/base.cpython-311.pyc -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io/__pycache__
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/__pycache__/_utils.cpython-311.pyc -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io/__pycache__
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/__pycache__/__init__.cpython-311.pyc -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io/__pycache__
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/__pycache__/VcfIO.cpython-311.pyc -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io/__pycache__
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/__pycache__/GffIO.cpython-311.pyc -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io/__pycache__
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/__pycache__/FofnIO.cpython-311.pyc -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io/__pycache__
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/__pycache__/FastqIO.cpython-311.pyc -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io/__pycache__
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/__pycache__/FastaIO.cpython-311.pyc -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io/__pycache__
creating /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io/align
creating /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io/align/__pycache__
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/align/__pycache__/__init__.cpython-311.pyc -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io/align/__pycache__
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/align/__pycache__/_BamSupport.cpython-311.pyc -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io/align/__pycache__
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/align/__pycache__/_AlignmentMixin.cpython-311.pyc -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io/align/__pycache__
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/align/__pycache__/PacBioBamIndex.cpython-311.pyc -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io/align/__pycache__
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/align/__pycache__/BlasrIO.cpython-311.pyc -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io/align/__pycache__
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/align/__pycache__/BamIO.cpython-311.pyc -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io/align/__pycache__
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/align/__pycache__/BamAlignment.cpython-311.pyc -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io/align/__pycache__
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/align/BamAlignment.py -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io/align
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/align/BamIO.py -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io/align
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/align/BlasrIO.py -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io/align
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/align/PacBioBamIndex.py -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io/align
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/align/_AlignmentMixin.py -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io/align
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/align/_BamSupport.py -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io/align
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/align/__init__.py -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io/align
creating /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io/dataset
creating /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io/dataset/__pycache__
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/dataset/__pycache__/utils.cpython-311.pyc -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io/dataset/__pycache__
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/dataset/__pycache__/run_split.cpython-311.pyc -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io/dataset/__pycache__
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/dataset/__pycache__/__init__.cpython-311.pyc -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io/dataset/__pycache__
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/dataset/__pycache__/DataSetWriter.cpython-311.pyc -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io/dataset/__pycache__
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/dataset/__pycache__/DataSetValidator.cpython-311.pyc -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io/dataset/__pycache__
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/dataset/__pycache__/DataSetUtils.cpython-311.pyc -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io/dataset/__pycache__
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/dataset/__pycache__/DataSetReader.cpython-311.pyc -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io/dataset/__pycache__
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/dataset/__pycache__/DataSetMetaTypes.cpython-311.pyc -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io/dataset/__pycache__
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/dataset/__pycache__/DataSetMembers.cpython-311.pyc -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io/dataset/__pycache__
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/dataset/__pycache__/DataSetIO.cpython-311.pyc -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io/dataset/__pycache__
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/dataset/__pycache__/DataSetErrors.cpython-311.pyc -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io/dataset/__pycache__
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/dataset/DataSetErrors.py -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io/dataset
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/dataset/DataSetIO.py -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io/dataset
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/dataset/DataSetMetaTypes.py -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io/dataset
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/dataset/DataSetReader.py -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io/dataset
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/dataset/DataSetUtils.py -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io/dataset
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/dataset/DataSetWriter.py -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io/dataset
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/dataset/__init__.py -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io/dataset
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/dataset/run_split.py -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io/dataset
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/dataset/utils.py -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io/dataset
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/dataset/DataSetValidator.py -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io/dataset
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/dataset/DataSetMembers.py -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io/dataset
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/FastaIO.py -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/FastqIO.py -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/FofnIO.py -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/GffIO.py -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/VcfIO.py -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/__init__.py -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/_utils.py -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/base.py -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/opener.py -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io
creating /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/model
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/model/__init__.py -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/model
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/model/baseRegions.py -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/model
creating /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/util
creating /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/util/__pycache__
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/util/__pycache__/statistics.cpython-311.pyc -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/util/__pycache__
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/util/__pycache__/decorators.cpython-311.pyc -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/util/__pycache__
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/util/__pycache__/__init__.cpython-311.pyc -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/util/__pycache__
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/util/__pycache__/ToolRunner.cpython-311.pyc -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/util/__pycache__
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/util/ToolRunner.py -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/util
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/util/__init__.py -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/util
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/util/decorators.py -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/util
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/util/statistics.py -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/util
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/__init__.py -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore
copying /build/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/sequence.py -> /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore
byte-compiling /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/chemistry/__init__.py to __init__.cpython-311.pyc
byte-compiling /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/chemistry/chemistry.py to chemistry.cpython-311.pyc
byte-compiling /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data/datasets/__init__.py to __init__.cpython-311.pyc
byte-compiling /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/data/__init__.py to __init__.cpython-311.pyc
byte-compiling /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io/align/BamAlignment.py to BamAlignment.cpython-311.pyc
byte-compiling /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io/align/BamIO.py to BamIO.cpython-311.pyc
byte-compiling /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io/align/BlasrIO.py to BlasrIO.cpython-311.pyc
byte-compiling /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io/align/PacBioBamIndex.py to PacBioBamIndex.cpython-311.pyc
byte-compiling /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io/align/_AlignmentMixin.py to _AlignmentMixin.cpython-311.pyc
byte-compiling /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io/align/_BamSupport.py to _BamSupport.cpython-311.pyc
byte-compiling /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io/align/__init__.py to __init__.cpython-311.pyc
byte-compiling /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io/dataset/DataSetErrors.py to DataSetErrors.cpython-311.pyc
byte-compiling /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io/dataset/DataSetIO.py to DataSetIO.cpython-311.pyc
byte-compiling /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io/dataset/DataSetMetaTypes.py to DataSetMetaTypes.cpython-311.pyc
byte-compiling /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io/dataset/DataSetReader.py to DataSetReader.cpython-311.pyc
byte-compiling /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io/dataset/DataSetUtils.py to DataSetUtils.cpython-311.pyc
byte-compiling /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io/dataset/DataSetWriter.py to DataSetWriter.cpython-311.pyc
byte-compiling /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io/dataset/__init__.py to __init__.cpython-311.pyc
byte-compiling /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io/dataset/run_split.py to run_split.cpython-311.pyc
byte-compiling /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io/dataset/utils.py to utils.cpython-311.pyc
byte-compiling /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io/dataset/DataSetValidator.py to DataSetValidator.cpython-311.pyc
byte-compiling /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io/dataset/DataSetMembers.py to DataSetMembers.cpython-311.pyc
byte-compiling /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io/FastaIO.py to FastaIO.cpython-311.pyc
byte-compiling /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io/FastqIO.py to FastqIO.cpython-311.pyc
byte-compiling /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io/FofnIO.py to FofnIO.cpython-311.pyc
byte-compiling /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io/GffIO.py to GffIO.cpython-311.pyc
byte-compiling /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io/VcfIO.py to VcfIO.cpython-311.pyc
byte-compiling /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io/__init__.py to __init__.cpython-311.pyc
byte-compiling /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io/_utils.py to _utils.cpython-311.pyc
byte-compiling /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io/base.py to base.cpython-311.pyc
byte-compiling /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/io/opener.py to opener.cpython-311.pyc
byte-compiling /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/model/__init__.py to __init__.cpython-311.pyc
byte-compiling /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/model/baseRegions.py to baseRegions.cpython-311.pyc
byte-compiling /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/util/ToolRunner.py to ToolRunner.cpython-311.pyc
byte-compiling /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/util/__init__.py to __init__.cpython-311.pyc
byte-compiling /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/util/decorators.py to decorators.cpython-311.pyc
byte-compiling /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/util/statistics.py to statistics.cpython-311.pyc
byte-compiling /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/__init__.py to __init__.cpython-311.pyc
byte-compiling /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore/sequence.py to sequence.cpython-311.pyc
running install_egg_info
Copying pbcore.egg-info to /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.11/dist-packages/pbcore-2.2.0.egg-info
Skipping SOURCES.txt
running install_scripts
Installing .open script to /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/bin
I: pybuild pybuild:333: chmod -x /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore//usr/lib/python3.11/dist-packages/pbcore/data/datasets/*.xml
debian/rules override_dh_install
make[1]: Entering directory '/build/python-pbcore-2.1.2+dfsg'
debian/rules:55: warning: overriding recipe for target 'override_dh_auto_clean'
debian/rules:28: warning: ignoring old recipe for target 'override_dh_auto_clean'
dh_install
mv /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/bin/.open /build/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/bin/pbopen
rmdir /build/python-pbcore-2.1.2+dfsg/debian/python-pbcore-doc/usr/share/doc/python3-pbcore/html/_images/
make[1]: Leaving directory '/build/python-pbcore-2.1.2+dfsg'
debian/rules override_dh_installdocs
make[1]: Entering directory '/build/python-pbcore-2.1.2+dfsg'
debian/rules:55: warning: overriding recipe for target 'override_dh_auto_clean'
debian/rules:28: warning: ignoring old recipe for target 'override_dh_auto_clean'
dh_installdocs -X _source
make[1]: Leaving directory '/build/python-pbcore-2.1.2+dfsg'
debian/rules override_dh_installchangelogs
make[1]: Entering directory '/build/python-pbcore-2.1.2+dfsg'
debian/rules:55: warning: overriding recipe for target 'override_dh_auto_clean'
debian/rules:28: warning: ignoring old recipe for target 'override_dh_auto_clean'
dh_installchangelogs CHANGELOG.org
make[1]: Leaving directory '/build/python-pbcore-2.1.2+dfsg'
dh_installman -O--buildsystem=pybuild
dh_python3 -O--buildsystem=pybuild
dh_installsystemduser -O--buildsystem=pybuild
dh_perl -O--buildsystem=pybuild
dh_link -O--buildsystem=pybuild
dh_strip_nondeterminism -O--buildsystem=pybuild
dh_compress -O--buildsystem=pybuild
dh_fixperms -O--buildsystem=pybuild
dh_missing -O--buildsystem=pybuild
dh_installdeb -O--buildsystem=pybuild
dh_gencontrol -O--buildsystem=pybuild
dpkg-gencontrol: warning: Depends field of package python-pbcore-doc: substitution variable ${sphinxdoc:Depends} used, but is not defined
dh_md5sums -O--buildsystem=pybuild
dh_builddeb -O--buildsystem=pybuild
dpkg-deb: building package 'python3-pbcore' in '../python3-pbcore_2.1.2+dfsg-5_all.deb'.
dpkg-deb: building package 'python-pbcore-doc' in '../python-pbcore-doc_2.1.2+dfsg-5_all.deb'.
dpkg-genbuildinfo --build=binary -O../python-pbcore_2.1.2+dfsg-5_amd64.buildinfo
dpkg-genchanges --build=binary -O../python-pbcore_2.1.2+dfsg-5_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: 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/3095761 and its subdirectories
I: Current time: Mon May 1 02:12:34 -12 2023
I: pbuilder-time-stamp: 1682950354