I: pbuilder: network access will be disabled during build
I: Current time: Wed Apr 8 08:43:41 -12 2026
I: pbuilder-time-stamp: 1775681021
I: Building the build Environment
I: extracting base tarball [/var/cache/pbuilder/trixie-reproducible-base.tgz]
I: copying local configuration
W: --override-config is not set; not updating apt.conf Read the manpage for details.
I: mounting /proc filesystem
I: mounting /sys filesystem
I: creating /{dev,run}/shm
I: mounting /dev/pts filesystem
I: redirecting /dev/ptmx to /dev/pts/ptmx
I: policy-rc.d already exists
I: using eatmydata during job
I: Copying source file
I: copying [python-pbcore_2.1.2+dfsg-11.dsc]
I: copying [./python-pbcore_2.1.2+dfsg.orig.tar.xz]
I: copying [./python-pbcore_2.1.2+dfsg-11.debian.tar.xz]
I: Extracting source
dpkg-source: warning: cannot verify inline signature for ./python-pbcore_2.1.2+dfsg-11.dsc: unsupported subcommand
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-11.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
dpkg-source: info: applying no-intersphinx.patch
dpkg-source: info: applying remove-pkg-resources.patch
dpkg-source: info: applying numpy2.patch
I: Not using root during the build.
I: Installing the build-deps
I: user script /srv/workspace/pbuilder/458/tmp/hooks/D02_print_environment starting
I: set
BUILDDIR='/build/reproducible-path'
BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other'
BUILDUSERNAME='pbuilder1'
BUILD_ARCH='i386'
DEBIAN_FRONTEND='noninteractive'
DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=22 '
DISTRIBUTION='trixie'
HOME='/root'
HOST_ARCH='i386'
IFS='
'
INVOCATION_ID='320345d08de240088928eae215e4e5f9'
LANG='C'
LANGUAGE='en_US:en'
LC_ALL='C'
LD_LIBRARY_PATH='/usr/lib/libeatmydata'
LD_PRELOAD='libeatmydata.so'
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='458'
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.bUr7QKeF/pbuilderrc_mRIJ --distribution trixie --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.bUr7QKeF/b1 --logfile b1/build.log python-pbcore_2.1.2+dfsg-11.dsc'
SUDO_GID='112'
SUDO_UID='107'
SUDO_USER='jenkins'
TERM='unknown'
TZ='/usr/share/zoneinfo/Etc/GMT+12'
USER='root'
_='/usr/bin/systemd-run'
http_proxy='http://213.165.73.152:3128'
I: uname -a
Linux ionos6-i386 6.1.0-31-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.128-1 (2025-02-07) x86_64 GNU/Linux
I: ls -l /bin
lrwxrwxrwx 1 root root 7 Nov 22 2024 /bin -> usr/bin
I: user script /srv/workspace/pbuilder/458/tmp/hooks/D02_print_environment finished
-> Attempting to satisfy build-dependencies
-> Creating pbuilder-satisfydepends-dummy package
Package: pbuilder-satisfydepends-dummy
Version: 0.invalid.0
Architecture: i386
Maintainer: Debian Pbuilder Team <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, dh-sequence-python3, dh-sequence-sphinxdoc, 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, 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 ... 19787 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 dh-sequence-python3; however:
Package dh-sequence-python3 is not installed.
pbuilder-satisfydepends-dummy depends on dh-sequence-sphinxdoc; however:
Package dh-sequence-sphinxdoc 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; 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} fontconfig-config{a} fonts-dejavu-core{a} fonts-dejavu-mono{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} libcairo2{a} libcom-err2{a} libcurl3t64-gnutls{a} libcurl4t64{a} libdebhelper-perl{a} libdeflate0{a} libelf1t64{a} libexpat1{a} libffi8{a} libfile-stripnondeterminism-perl{a} libfontconfig1{a} libfontenc1{a} libfreetype6{a} libfribidi0{a} libgfortran5{a} libglib2.0-0t64{a} libgnutls30t64{a} libgraphite2-3{a} libgssapi-krb5-2{a} libharfbuzz0b{a} libhdf5-310{a} libhdf5-hl-310{a} libhts3t64{a} libhtscodecs2{a} libicu72{a} libidn2-0{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} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} liblapack3{a} liblcms2-2{a} libldap2{a} liblerc4{a} liblzf1{a} libmagic-mgc{a} libmagic1t64{a} libnghttp2-14{a} libnghttp3-9{a} libngtcp2-16{a} libngtcp2-crypto-gnutls8{a} libopenjp2-7{a} libp11-kit0{a} libpipeline1{a} libpixman-1-0{a} libpng16-16t64{a} libpsl5t64{a} libpython3-stdlib{a} libpython3.13-minimal{a} libpython3.13-stdlib{a} libraqm0{a} libreadline8t64{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsharpyuv0{a} libssh2-1t64{a} libsz2{a} libtasn1-6{a} libtiff6{a} libtool{a} libuchardet0{a} libunistring5{a} libwebp7{a} libwebpdemux2{a} libwebpmux3{a} libx11-6{a} libx11-data{a} libxau6{a} libxcb-render0{a} libxcb-shm0{a} libxcb1{a} libxdmcp6{a} libxext6{a} libxml2{a} libxrender1{a} m4{a} man-db{a} media-types{a} netbase{a} openssl{a} po-debconf{a} pylint{a} python-babel-localedata{a} python3{a} python3-alabaster{a} python3-all{a} python3-astroid{a} python3-autocommand{a} python3-babel{a} python3-biopython{a} python3-cairo{a} python3-certifi{a} python3-chardet{a} python3-charset-normalizer{a} python3-coverage{a} python3-defusedxml{a} python3-dill{a} python3-docutils{a} python3-elementpath{a} python3-execnet{a} python3-freetype{a} python3-h5py{a} python3-h5py-serial{a} python3-idna{a} python3-imagesize{a} python3-inflect{a} python3-iniconfig{a} python3-isort{a} python3-jaraco.context{a} python3-jaraco.functools{a} python3-jaraco.text{a} python3-jinja2{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-numpy-dev{a} python3-packaging{a} python3-pil{a} python3-pkg-resources{a} python3-platformdirs{a} python3-pluggy{a} python3-pygments{a} python3-pysam{a} python3-pytest{a} python3-pytest-cov{a} python3-pytest-runner{a} python3-pytest-xdist{a} python3-reportlab{a} python3-requests{a} python3-rlpycairo{a} python3-roman{a} python3-setuptools{a} python3-snowballstemmer{a} python3-sphinx{a} python3-tomlkit{a} python3-typeguard{a} python3-typing-extensions{a} python3-uritools{a} python3-urllib3{a} python3-xmlschema{a} python3-zipp{a} python3.13{a} python3.13-minimal{a} readline-common{a} sensible-utils{a} sgml-base{a} sphinx-common{a} tzdata{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 fonts-dejavu-extra javascript-common krb5-locales 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, 195 newly installed, 0 to remove and 0 not upgraded.
Need to get 87.3 MB of archives. After unpacking 345 MB will be used.
Writing extended state information...
Get: 1 http://deb.debian.org/debian trixie/main i386 libpython3.13-minimal i386 3.13.2-1 [859 kB]
Get: 2 http://deb.debian.org/debian trixie/main i386 libexpat1 i386 2.6.4-1 [107 kB]
Get: 3 http://deb.debian.org/debian trixie/main i386 python3.13-minimal i386 3.13.2-1 [2266 kB]
Get: 4 http://deb.debian.org/debian trixie/main i386 python3-minimal i386 3.13.2-1 [27.1 kB]
Get: 5 http://deb.debian.org/debian trixie/main i386 media-types all 12.0.0 [28.9 kB]
Get: 6 http://deb.debian.org/debian trixie/main i386 netbase all 6.4 [12.8 kB]
Get: 7 http://deb.debian.org/debian trixie/main i386 tzdata all 2025a-2 [259 kB]
Get: 8 http://deb.debian.org/debian trixie/main i386 libffi8 i386 3.4.7-1 [21.4 kB]
Get: 9 http://deb.debian.org/debian trixie/main i386 readline-common all 8.2-6 [69.4 kB]
Get: 10 http://deb.debian.org/debian trixie/main i386 libreadline8t64 i386 8.2-6 [173 kB]
Get: 11 http://deb.debian.org/debian trixie/main i386 libpython3.13-stdlib i386 3.13.2-1 [1985 kB]
Get: 12 http://deb.debian.org/debian trixie/main i386 python3.13 i386 3.13.2-1 [745 kB]
Get: 13 http://deb.debian.org/debian trixie/main i386 libpython3-stdlib i386 3.13.2-1 [10.0 kB]
Get: 14 http://deb.debian.org/debian trixie/main i386 python3 i386 3.13.2-1 [28.1 kB]
Get: 15 http://deb.debian.org/debian trixie/main i386 python3-numpy-dev i386 1:2.2.3+ds-2+b1 [145 kB]
Get: 16 http://deb.debian.org/debian trixie/main i386 libblas3 i386 3.12.1-2 [150 kB]
Get: 17 http://deb.debian.org/debian trixie/main i386 libgfortran5 i386 14.2.0-17 [735 kB]
Get: 18 http://deb.debian.org/debian trixie/main i386 liblapack3 i386 3.12.1-2 [2198 kB]
Get: 19 http://deb.debian.org/debian trixie/main i386 python3-numpy i386 1:2.2.3+ds-2+b1 [5060 kB]
Get: 20 http://deb.debian.org/debian trixie/main i386 sgml-base all 1.31 [15.4 kB]
Get: 21 http://deb.debian.org/debian trixie/main i386 sensible-utils all 0.0.24 [24.8 kB]
Get: 22 http://deb.debian.org/debian trixie/main i386 openssl i386 3.4.1-1 [1432 kB]
Get: 23 http://deb.debian.org/debian trixie/main i386 ca-certificates all 20241223 [164 kB]
Get: 24 http://deb.debian.org/debian trixie/main i386 libmagic-mgc i386 1:5.45-3+b1 [314 kB]
Get: 25 http://deb.debian.org/debian trixie/main i386 libmagic1t64 i386 1:5.45-3+b1 [115 kB]
Get: 26 http://deb.debian.org/debian trixie/main i386 file i386 1:5.45-3+b1 [43.2 kB]
Get: 27 http://deb.debian.org/debian trixie/main i386 gettext-base i386 0.23.1-1 [245 kB]
Get: 28 http://deb.debian.org/debian trixie/main i386 libuchardet0 i386 0.0.8-1+b2 [69.2 kB]
Get: 29 http://deb.debian.org/debian trixie/main i386 groff-base i386 1.23.0-7 [1199 kB]
Get: 30 http://deb.debian.org/debian trixie/main i386 bsdextrautils i386 2.40.4-5 [96.5 kB]
Get: 31 http://deb.debian.org/debian trixie/main i386 libpipeline1 i386 1.5.8-1 [41.2 kB]
Get: 32 http://deb.debian.org/debian trixie/main i386 man-db i386 2.13.0-1 [1428 kB]
Get: 33 http://deb.debian.org/debian trixie/main i386 m4 i386 1.4.19-5 [301 kB]
Get: 34 http://deb.debian.org/debian trixie/main i386 autoconf all 2.72-3 [493 kB]
Get: 35 http://deb.debian.org/debian trixie/main i386 autotools-dev all 20220109.1 [51.6 kB]
Get: 36 http://deb.debian.org/debian trixie/main i386 automake all 1:1.17-3 [862 kB]
Get: 37 http://deb.debian.org/debian trixie/main i386 autopoint all 0.23.1-1 [770 kB]
Get: 38 http://deb.debian.org/debian trixie/main i386 libdebhelper-perl all 13.24.1 [90.9 kB]
Get: 39 http://deb.debian.org/debian trixie/main i386 libtool all 2.5.4-3 [539 kB]
Get: 40 http://deb.debian.org/debian trixie/main i386 dh-autoreconf all 20 [17.1 kB]
Get: 41 http://deb.debian.org/debian trixie/main i386 libarchive-zip-perl all 1.68-1 [104 kB]
Get: 42 http://deb.debian.org/debian trixie/main i386 libfile-stripnondeterminism-perl all 1.14.1-2 [19.7 kB]
Get: 43 http://deb.debian.org/debian trixie/main i386 dh-strip-nondeterminism all 1.14.1-2 [8620 B]
Get: 44 http://deb.debian.org/debian trixie/main i386 libelf1t64 i386 0.192-4 [195 kB]
Get: 45 http://deb.debian.org/debian trixie/main i386 dwz i386 0.15-1+b1 [116 kB]
Get: 46 http://deb.debian.org/debian trixie/main i386 libunistring5 i386 1.3-1 [458 kB]
Get: 47 http://deb.debian.org/debian trixie/main i386 libicu72 i386 72.1-6 [9582 kB]
Get: 48 http://deb.debian.org/debian trixie/main i386 libxml2 i386 2.12.7+dfsg+really2.9.14-0.2+b2 [734 kB]
Get: 49 http://deb.debian.org/debian trixie/main i386 gettext i386 0.23.1-1 [1714 kB]
Get: 50 http://deb.debian.org/debian trixie/main i386 intltool-debian all 0.35.0+20060710.6 [22.9 kB]
Get: 51 http://deb.debian.org/debian trixie/main i386 po-debconf all 1.0.21+nmu1 [248 kB]
Get: 52 http://deb.debian.org/debian trixie/main i386 debhelper all 13.24.1 [920 kB]
Get: 53 http://deb.debian.org/debian trixie/main i386 python3-autocommand all 2.2.2-3 [13.6 kB]
Get: 54 http://deb.debian.org/debian trixie/main i386 python3-more-itertools all 10.6.0-1 [65.3 kB]
Get: 55 http://deb.debian.org/debian trixie/main i386 python3-typing-extensions all 4.12.2-2 [73.0 kB]
Get: 56 http://deb.debian.org/debian trixie/main i386 python3-typeguard all 4.4.2-1 [37.3 kB]
Get: 57 http://deb.debian.org/debian trixie/main i386 python3-inflect all 7.3.1-2 [32.4 kB]
Get: 58 http://deb.debian.org/debian trixie/main i386 python3-jaraco.context all 6.0.1-1 [8276 B]
Get: 59 http://deb.debian.org/debian trixie/main i386 python3-jaraco.functools all 4.1.0-1 [12.0 kB]
Get: 60 http://deb.debian.org/debian trixie/main i386 python3-pkg-resources all 75.8.0-1 [222 kB]
Get: 61 http://deb.debian.org/debian trixie/main i386 python3-jaraco.text all 4.0.0-1 [11.4 kB]
Get: 62 http://deb.debian.org/debian trixie/main i386 python3-zipp all 3.21.0-1 [10.6 kB]
Get: 63 http://deb.debian.org/debian trixie/main i386 python3-setuptools all 75.8.0-1 [724 kB]
Get: 64 http://deb.debian.org/debian trixie/main i386 dh-python all 6.20250108 [113 kB]
Get: 65 http://deb.debian.org/debian trixie/main i386 xml-core all 0.19 [20.1 kB]
Get: 66 http://deb.debian.org/debian trixie/main i386 docutils-common all 0.21.2+dfsg-2 [128 kB]
Get: 67 http://deb.debian.org/debian trixie/main i386 fonts-dejavu-mono all 2.37-8 [489 kB]
Get: 68 http://deb.debian.org/debian trixie/main i386 fonts-dejavu-core all 2.37-8 [840 kB]
Get: 69 http://deb.debian.org/debian trixie/main i386 libfontenc1 i386 1:1.1.8-1+b2 [23.4 kB]
Get: 70 http://deb.debian.org/debian trixie/main i386 libbrotli1 i386 1.1.0-2+b7 [299 kB]
Get: 71 http://deb.debian.org/debian trixie/main i386 libpng16-16t64 i386 1.6.47-1 [289 kB]
Get: 72 http://deb.debian.org/debian trixie/main i386 libfreetype6 i386 2.13.3+dfsg-1 [464 kB]
Get: 73 http://deb.debian.org/debian trixie/main i386 x11-common all 1:7.7+24 [217 kB]
Get: 74 http://deb.debian.org/debian trixie/main i386 xfonts-encodings all 1:1.0.4-2.2 [577 kB]
Get: 75 http://deb.debian.org/debian trixie/main i386 xfonts-utils i386 1:7.7+7 [95.1 kB]
Get: 76 http://deb.debian.org/debian trixie/main i386 fonts-urw-base35 all 20200910-8 [10.8 MB]
Get: 77 http://deb.debian.org/debian trixie/main i386 fontconfig-config i386 2.15.0-2 [317 kB]
Get: 78 http://deb.debian.org/debian trixie/main i386 libaec0 i386 1.1.3-1+b1 [25.0 kB]
Get: 79 http://deb.debian.org/debian trixie/main i386 libfontconfig1 i386 2.15.0-2 [402 kB]
Get: 80 http://deb.debian.org/debian trixie/main i386 libpixman-1-0 i386 0.44.0-3 [246 kB]
Get: 81 http://deb.debian.org/debian trixie/main i386 libxau6 i386 1:1.0.11-1 [20.7 kB]
Get: 82 http://deb.debian.org/debian trixie/main i386 libxdmcp6 i386 1:1.1.5-1 [28.2 kB]
Get: 83 http://deb.debian.org/debian trixie/main i386 libxcb1 i386 1.17.0-2+b1 [148 kB]
Get: 84 http://deb.debian.org/debian trixie/main i386 libx11-data all 2:1.8.10-2 [337 kB]
Get: 85 http://deb.debian.org/debian trixie/main i386 libx11-6 i386 2:1.8.10-2 [834 kB]
Get: 86 http://deb.debian.org/debian trixie/main i386 libxcb-render0 i386 1.17.0-2+b1 [116 kB]
Get: 87 http://deb.debian.org/debian trixie/main i386 libxcb-shm0 i386 1.17.0-2+b1 [105 kB]
Get: 88 http://deb.debian.org/debian trixie/main i386 libxext6 i386 2:1.3.4-1+b3 [52.5 kB]
Get: 89 http://deb.debian.org/debian trixie/main i386 libxrender1 i386 1:0.9.10-1.1+b4 [28.8 kB]
Get: 90 http://deb.debian.org/debian trixie/main i386 libcairo2 i386 1.18.2-2 [591 kB]
Get: 91 http://deb.debian.org/debian trixie/main i386 libcom-err2 i386 1.47.2-1 [24.3 kB]
Get: 92 http://deb.debian.org/debian trixie/main i386 libidn2-0 i386 2.3.7-2+b1 [130 kB]
Get: 93 http://deb.debian.org/debian trixie/main i386 libp11-kit0 i386 0.25.5-3 [423 kB]
Get: 94 http://deb.debian.org/debian trixie/main i386 libtasn1-6 i386 4.20.0-2 [51.6 kB]
Get: 95 http://deb.debian.org/debian trixie/main i386 libgnutls30t64 i386 3.8.9-2 [1462 kB]
Get: 96 http://deb.debian.org/debian trixie/main i386 libkrb5support0 i386 1.21.3-4 [35.0 kB]
Get: 97 http://deb.debian.org/debian trixie/main i386 libk5crypto3 i386 1.21.3-4 [83.7 kB]
Get: 98 http://deb.debian.org/debian trixie/main i386 libkeyutils1 i386 1.6.3-4 [9600 B]
Get: 99 http://deb.debian.org/debian trixie/main i386 libkrb5-3 i386 1.21.3-4 [354 kB]
Get: 100 http://deb.debian.org/debian trixie/main i386 libgssapi-krb5-2 i386 1.21.3-4 [149 kB]
Get: 101 http://deb.debian.org/debian trixie/main i386 libsasl2-modules-db i386 2.1.28+dfsg1-9 [20.8 kB]
Get: 102 http://deb.debian.org/debian trixie/main i386 libsasl2-2 i386 2.1.28+dfsg1-9 [61.2 kB]
Get: 103 http://deb.debian.org/debian trixie/main i386 libldap2 i386 2.6.9+dfsg-1 [205 kB]
Get: 104 http://deb.debian.org/debian trixie/main i386 libnghttp2-14 i386 1.64.0-1 [82.4 kB]
Get: 105 http://deb.debian.org/debian trixie/main i386 libnghttp3-9 i386 1.6.0-2 [75.9 kB]
Get: 106 http://deb.debian.org/debian trixie/main i386 libngtcp2-16 i386 1.9.1-1 [151 kB]
Get: 107 http://deb.debian.org/debian trixie/main i386 libngtcp2-crypto-gnutls8 i386 1.9.1-1 [19.1 kB]
Get: 108 http://deb.debian.org/debian trixie/main i386 libpsl5t64 i386 0.21.2-1.1+b1 [57.7 kB]
Get: 109 http://deb.debian.org/debian trixie/main i386 librtmp1 i386 2.4+20151223.gitfa8646d.1-2+b5 [62.4 kB]
Get: 110 http://deb.debian.org/debian trixie/main i386 libssh2-1t64 i386 1.11.1-1 [256 kB]
Get: 111 http://deb.debian.org/debian trixie/main i386 libcurl3t64-gnutls i386 8.12.1-3 [411 kB]
Get: 112 http://deb.debian.org/debian trixie/main i386 libcurl4t64 i386 8.12.1-3 [415 kB]
Get: 113 http://deb.debian.org/debian trixie/main i386 libdeflate0 i386 1.23-1+b1 [48.4 kB]
Get: 114 http://deb.debian.org/debian trixie/main i386 libfribidi0 i386 1.0.16-1 [27.0 kB]
Get: 115 http://deb.debian.org/debian trixie/main i386 libglib2.0-0t64 i386 2.83.4-1 [1582 kB]
Get: 116 http://deb.debian.org/debian trixie/main i386 libgraphite2-3 i386 1.3.14-2+b1 [77.8 kB]
Get: 117 http://deb.debian.org/debian trixie/main i386 libharfbuzz0b i386 10.2.0-1 [504 kB]
Get: 118 http://deb.debian.org/debian trixie/main i386 libsz2 i386 1.1.3-1+b1 [8128 B]
Get: 119 http://deb.debian.org/debian trixie/main i386 libhdf5-310 i386 1.14.5+repack-3 [1327 kB]
Get: 120 http://deb.debian.org/debian trixie/main i386 libhdf5-hl-310 i386 1.14.5+repack-3 [81.6 kB]
Get: 121 http://deb.debian.org/debian trixie/main i386 libhtscodecs2 i386 1.6.1-2 [70.9 kB]
Get: 122 http://deb.debian.org/debian trixie/main i386 libhts3t64 i386 1.21+ds-1 [506 kB]
Get: 123 http://deb.debian.org/debian trixie/main i386 libimagequant0 i386 2.18.0-1+b2 [36.0 kB]
Get: 124 http://deb.debian.org/debian trixie/main i386 libjbig0 i386 2.1-6.1+b2 [32.2 kB]
Get: 125 http://deb.debian.org/debian trixie/main i386 libjpeg62-turbo i386 1:2.1.5-3.1 [170 kB]
Get: 126 http://deb.debian.org/debian trixie/main i386 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [326 kB]
Get: 127 http://deb.debian.org/debian trixie/main i386 libjs-jquery-hotkeys all 0.2.0-1 [12.6 kB]
Get: 128 http://deb.debian.org/debian trixie/main i386 libjs-jquery-isonscreen all 1.2.0-1.1 [3196 B]
Get: 129 http://deb.debian.org/debian trixie/main i386 libjs-jquery-metadata all 12-4 [6532 B]
Get: 130 http://deb.debian.org/debian trixie/main i386 libjs-jquery-tablesorter all 1:2.31.3+dfsg1-4 [184 kB]
Get: 131 http://deb.debian.org/debian trixie/main i386 libjs-jquery-throttle-debounce all 1.1+dfsg.1-2 [12.2 kB]
Get: 132 http://deb.debian.org/debian trixie/main i386 libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [116 kB]
Get: 133 http://deb.debian.org/debian trixie/main i386 libjs-sphinxdoc all 8.1.3-5 [30.5 kB]
Get: 134 http://deb.debian.org/debian trixie/main i386 libjson-perl all 4.10000-1 [87.5 kB]
Get: 135 http://deb.debian.org/debian trixie/main i386 liblcms2-2 i386 2.16-2 [171 kB]
Get: 136 http://deb.debian.org/debian trixie/main i386 liblerc4 i386 4.0.0+ds-5 [191 kB]
Get: 137 http://deb.debian.org/debian trixie/main i386 liblzf1 i386 3.6-4+b3 [9876 B]
Get: 138 http://deb.debian.org/debian trixie/main i386 libopenjp2-7 i386 2.5.3-1 [215 kB]
Get: 139 http://deb.debian.org/debian trixie/main i386 libraqm0 i386 0.10.2-1 [14.6 kB]
Get: 140 http://deb.debian.org/debian trixie/main i386 libsharpyuv0 i386 1.5.0-0.1 [115 kB]
Get: 141 http://deb.debian.org/debian trixie/main i386 libwebp7 i386 1.5.0-0.1 [329 kB]
Get: 142 http://deb.debian.org/debian trixie/main i386 libtiff6 i386 4.5.1+git230720-5 [339 kB]
Get: 143 http://deb.debian.org/debian trixie/main i386 libwebpdemux2 i386 1.5.0-0.1 [114 kB]
Get: 144 http://deb.debian.org/debian trixie/main i386 libwebpmux3 i386 1.5.0-0.1 [127 kB]
Get: 145 http://deb.debian.org/debian trixie/main i386 python3-astroid all 3.3.8-2 [213 kB]
Get: 146 http://deb.debian.org/debian trixie/main i386 python3-isort all 6.0.1-1 [72.3 kB]
Get: 147 http://deb.debian.org/debian trixie/main i386 python3-mypy-extensions all 1.0.0-1 [6064 B]
Get: 148 http://deb.debian.org/debian trixie/main i386 python3-logilab-common all 2.0.0-4 [111 kB]
Get: 149 http://deb.debian.org/debian trixie/main i386 python3-dill all 0.3.9-1 [83.5 kB]
Get: 150 http://deb.debian.org/debian trixie/main i386 python3-mccabe all 0.7.0-1 [10.5 kB]
Get: 151 http://deb.debian.org/debian trixie/main i386 python3-platformdirs all 4.3.6-1 [16.6 kB]
Get: 152 http://deb.debian.org/debian trixie/main i386 python3-tomlkit all 0.13.2-1 [42.7 kB]
Get: 153 http://deb.debian.org/debian trixie/main i386 pylint all 3.3.4-1 [341 kB]
Get: 154 http://deb.debian.org/debian trixie/main i386 python-babel-localedata all 2.17.0-1 [6050 kB]
Get: 155 http://deb.debian.org/debian trixie/main i386 python3-alabaster all 0.7.16-0.1 [27.9 kB]
Get: 156 http://deb.debian.org/debian trixie/main i386 python3-all i386 3.13.2-1 [1048 B]
Get: 157 http://deb.debian.org/debian trixie/main i386 python3-babel all 2.17.0-1 [117 kB]
Get: 158 http://deb.debian.org/debian trixie/main i386 python3-chardet all 5.2.0+dfsg-2 [108 kB]
Get: 159 http://deb.debian.org/debian trixie/main i386 python3-pil i386 11.1.0-5+b1 [518 kB]
Get: 160 http://deb.debian.org/debian trixie/main i386 python3-cairo i386 1.26.1-2+b2 [116 kB]
Get: 161 http://deb.debian.org/debian trixie/main i386 python3-freetype all 2.5.1-1 [89.3 kB]
Get: 162 http://deb.debian.org/debian trixie/main i386 python3-rlpycairo all 0.3.0-3 [9904 B]
Get: 163 http://deb.debian.org/debian trixie/main i386 python3-reportlab all 4.3.1-1 [1158 kB]
Get: 164 http://deb.debian.org/debian trixie/main i386 w3c-sgml-lib all 1.3-3 [273 kB]
Get: 165 http://deb.debian.org/debian trixie/main i386 python3-biopython i386 1.85+dfsg-2+b1 [1668 kB]
Get: 166 http://deb.debian.org/debian trixie/main i386 python3-certifi all 2025.1.31+ds-1 [9652 B]
Get: 167 http://deb.debian.org/debian trixie/main i386 python3-charset-normalizer i386 3.4.1-1+b1 [127 kB]
Get: 168 http://deb.debian.org/debian trixie/main i386 python3-coverage i386 7.6.0+dfsg1-2+b2 [176 kB]
Get: 169 http://deb.debian.org/debian trixie/main i386 python3-defusedxml all 0.7.1-3 [43.4 kB]
Get: 170 http://deb.debian.org/debian trixie/main i386 python3-roman all 5.0-1 [10.6 kB]
Get: 171 http://deb.debian.org/debian trixie/main i386 python3-docutils all 0.21.2+dfsg-2 [403 kB]
Get: 172 http://deb.debian.org/debian trixie/main i386 python3-elementpath all 4.7.0-1 [160 kB]
Get: 173 http://deb.debian.org/debian trixie/main i386 python3-execnet all 2.1.1-1 [40.2 kB]
Get: 174 http://deb.debian.org/debian trixie/main i386 python3-h5py-serial i386 3.13.0-1+b1 [1031 kB]
Get: 175 http://deb.debian.org/debian trixie/main i386 python3-h5py all 3.13.0-1 [15.0 kB]
Get: 176 http://deb.debian.org/debian trixie/main i386 python3-idna all 3.10-1 [42.0 kB]
Get: 177 http://deb.debian.org/debian trixie/main i386 python3-imagesize all 1.4.1-1 [6688 B]
Get: 178 http://deb.debian.org/debian trixie/main i386 python3-iniconfig all 1.1.1-2 [6396 B]
Get: 179 http://deb.debian.org/debian trixie/main i386 python3-markupsafe i386 2.1.5-1+b3 [14.0 kB]
Get: 180 http://deb.debian.org/debian trixie/main i386 python3-jinja2 all 3.1.5-2 [107 kB]
Get: 181 http://deb.debian.org/debian trixie/main i386 python3-packaging all 24.2-1 [55.3 kB]
Get: 182 http://deb.debian.org/debian trixie/main i386 python3-pluggy all 1.5.0-1 [26.9 kB]
Get: 183 http://deb.debian.org/debian trixie/main i386 python3-pygments all 2.18.0+dfsg-2 [836 kB]
Get: 184 http://deb.debian.org/debian trixie/main i386 python3-pysam i386 0.23.0+ds-1+b1 [3665 kB]
Get: 185 http://deb.debian.org/debian trixie/main i386 python3-pytest all 8.3.4-1 [250 kB]
Get: 186 http://deb.debian.org/debian trixie/main i386 python3-pytest-cov all 5.0.0-1 [26.8 kB]
Get: 187 http://deb.debian.org/debian trixie/main i386 python3-pytest-runner all 2.11.1-4 [8432 B]
Get: 188 http://deb.debian.org/debian trixie/main i386 python3-pytest-xdist all 3.6.1-1 [44.4 kB]
Get: 189 http://deb.debian.org/debian trixie/main i386 python3-urllib3 all 2.3.0-1 [114 kB]
Get: 190 http://deb.debian.org/debian trixie/main i386 python3-requests all 2.32.3+dfsg-4 [72.1 kB]
Get: 191 http://deb.debian.org/debian trixie/main i386 python3-snowballstemmer all 2.2.0-4 [58.0 kB]
Get: 192 http://deb.debian.org/debian trixie/main i386 sphinx-common all 8.1.3-5 [617 kB]
Get: 193 http://deb.debian.org/debian trixie/main i386 python3-sphinx all 8.1.3-5 [468 kB]
Get: 194 http://deb.debian.org/debian trixie/main i386 python3-uritools all 4.0.3-1 [28.6 kB]
Get: 195 http://deb.debian.org/debian trixie/main i386 python3-xmlschema all 3.4.3-1 [239 kB]
Fetched 87.3 MB in 2s (36.1 MB/s)
Preconfiguring packages ...
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Unpacking libpython3.13-minimal:i386 (3.13.2-1) ...
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Unpacking python3.13-minimal (3.13.2-1) ...
Setting up libpython3.13-minimal:i386 (3.13.2-1) ...
Setting up libexpat1:i386 (2.6.4-1) ...
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Adding 'diversion of /lib/i386-linux-gnu/libhistory.so.8 to /lib/i386-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64'
Adding 'diversion of /lib/i386-linux-gnu/libhistory.so.8.2 to /lib/i386-linux-gnu/libhistory.so.8.2.usr-is-merged by libreadline8t64'
Adding 'diversion of /lib/i386-linux-gnu/libreadline.so.8 to /lib/i386-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64'
Adding 'diversion of /lib/i386-linux-gnu/libreadline.so.8.2 to /lib/i386-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64'
Unpacking libreadline8t64:i386 (8.2-6) ...
Selecting previously unselected package libpython3.13-stdlib:i386.
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Setting up python3-minimal (3.13.2-1) ...
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Unpacking python3 (3.13.2-1) ...
Selecting previously unselected package python3-numpy-dev:i386.
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done.
Reading package lists...
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-> Finished parsing the build-deps
I: Building the package
I: Running cd /build/reproducible-path/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-11_source.changes
dpkg-buildpackage: info: source package python-pbcore
dpkg-buildpackage: info: source version 2.1.2+dfsg-11
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 i386
debian/rules clean
dh clean --buildsystem=pybuild
dh_auto_clean -O--buildsystem=pybuild
I: pybuild base:311: python3.13 setup.py clean
/usr/lib/python3/dist-packages/setuptools/dist.py:493: SetuptoolsDeprecationWarning: Invalid dash-separated options
!!
********************************************************************************
Usage of dash-separated 'description-file' will not be supported in future
versions. Please use the underscore name 'description_file' instead.
This deprecation is overdue, please update your project and remove deprecated
calls to avoid build errors in the future.
See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details.
********************************************************************************
!!
opt = self.warn_dash_deprecation(opt, section)
/usr/lib/python3/dist-packages/setuptools/_distutils/dist.py:270: UserWarning: Unknown distribution option: 'tests_require'
warnings.warn(msg)
running clean
removing '/build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build' (and everything under it)
'build/bdist.linux-i686' does not exist -- can't clean it
'build/scripts-3.13' does not exist -- can't clean it
debian/rules execute_after_dh_auto_clean
make[1]: Entering directory '/build/reproducible-path/python-pbcore-2.1.2+dfsg'
/usr/bin/make clean
make[2]: Entering directory '/build/reproducible-path/python-pbcore-2.1.2+dfsg'
cd doc && rm -rf _templates _static _build searchindex.js objects.inv
rm -rf build/;\
find . -name "*.egg-info" | xargs rm -rf;\
rm -rf dist/;\
find . -name "*.pyc" | xargs rm -f;
rm -f nosetests.xml
make[2]: Leaving directory '/build/reproducible-path/python-pbcore-2.1.2+dfsg'
find . -name __pycache__ | xargs -r rm -rf
make[1]: Leaving directory '/build/reproducible-path/python-pbcore-2.1.2+dfsg'
dh_autoreconf_clean -O--buildsystem=pybuild
dh_clean -O--buildsystem=pybuild
debian/rules binary
dh binary --buildsystem=pybuild
dh_update_autotools_config -O--buildsystem=pybuild
dh_autoreconf -O--buildsystem=pybuild
dh_auto_configure -O--buildsystem=pybuild
I: pybuild base:311: python3.13 setup.py config
/usr/lib/python3/dist-packages/setuptools/dist.py:493: SetuptoolsDeprecationWarning: Invalid dash-separated options
!!
********************************************************************************
Usage of dash-separated 'description-file' will not be supported in future
versions. Please use the underscore name 'description_file' instead.
This deprecation is overdue, please update your project and remove deprecated
calls to avoid build errors in the future.
See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details.
********************************************************************************
!!
opt = self.warn_dash_deprecation(opt, section)
/usr/lib/python3/dist-packages/setuptools/_distutils/dist.py:270: UserWarning: Unknown distribution option: 'tests_require'
warnings.warn(msg)
running config
debian/rules override_dh_auto_build
make[1]: Entering directory '/build/reproducible-path/python-pbcore-2.1.2+dfsg'
dh_auto_build
I: pybuild base:311: /usr/bin/python3 setup.py build
/usr/lib/python3/dist-packages/setuptools/dist.py:493: SetuptoolsDeprecationWarning: Invalid dash-separated options
!!
********************************************************************************
Usage of dash-separated 'description-file' will not be supported in future
versions. Please use the underscore name 'description_file' instead.
This deprecation is overdue, please update your project and remove deprecated
calls to avoid build errors in the future.
See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details.
********************************************************************************
!!
opt = self.warn_dash_deprecation(opt, section)
/usr/lib/python3/dist-packages/setuptools/_distutils/dist.py:270: UserWarning: Unknown distribution option: 'tests_require'
warnings.warn(msg)
running build
running build_py
creating /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore
copying pbcore/sequence.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore
copying pbcore/__init__.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore
creating /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/util
copying pbcore/util/statistics.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/util
copying pbcore/util/__init__.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/util
copying pbcore/util/decorators.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/util
copying pbcore/util/ToolRunner.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/util
creating /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data
copying pbcore/data/__init__.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data
creating /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io
copying pbcore/io/FofnIO.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io
copying pbcore/io/FastqIO.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io
copying pbcore/io/GffIO.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io
copying pbcore/io/base.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io
copying pbcore/io/FastaIO.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io
copying pbcore/io/opener.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io
copying pbcore/io/VcfIO.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io
copying pbcore/io/__init__.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io
copying pbcore/io/_utils.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io
creating /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/chemistry
copying pbcore/chemistry/chemistry.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/chemistry
copying pbcore/chemistry/__init__.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/chemistry
creating /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/model
copying pbcore/model/baseRegions.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/model
copying pbcore/model/__init__.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/model
creating /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/__init__.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets
creating /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/dataset
copying pbcore/io/dataset/DataSetMembers.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/dataset
copying pbcore/io/dataset/DataSetIO.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/dataset
copying pbcore/io/dataset/run_split.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/dataset
copying pbcore/io/dataset/DataSetMetaTypes.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/dataset
copying pbcore/io/dataset/DataSetErrors.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/dataset
copying pbcore/io/dataset/utils.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/dataset
copying pbcore/io/dataset/DataSetUtils.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/dataset
copying pbcore/io/dataset/DataSetWriter.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/dataset
copying pbcore/io/dataset/DataSetValidator.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/dataset
copying pbcore/io/dataset/__init__.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/dataset
copying pbcore/io/dataset/DataSetReader.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/dataset
creating /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/align
copying pbcore/io/align/BlasrIO.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/align
copying pbcore/io/align/BamIO.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/align
copying pbcore/io/align/PacBioBamIndex.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/align
copying pbcore/io/align/BamAlignment.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/align
copying pbcore/io/align/_AlignmentMixin.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/align
copying pbcore/io/align/__init__.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/align
copying pbcore/io/align/_BamSupport.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/align
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:212: _Warning: Package 'pbcore.chemistry.resources' is absent from the `packages` configuration.
!!
********************************************************************************
############################
# Package would be ignored #
############################
Python recognizes 'pbcore.chemistry.resources' as an importable package[^1],
but it is absent from setuptools' `packages` configuration.
This leads to an ambiguous overall configuration. If you want to distribute this
package, please make sure that 'pbcore.chemistry.resources' is explicitly added
to the `packages` configuration field.
Alternatively, you can also rely on setuptools' discovery methods
(for example by using `find_namespace_packages(...)`/`find_namespace:`
instead of `find_packages(...)`/`find:`).
You can read more about "package discovery" on setuptools documentation page:
- https://setuptools.pypa.io/en/latest/userguide/package_discovery.html
If you don't want 'pbcore.chemistry.resources' to be distributed and are
already explicitly excluding 'pbcore.chemistry.resources' via
`find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
you can try to use `exclude_package_data`, or `include-package-data=False` in
combination with a more fine grained `package-data` configuration.
You can read more about "package data files" on setuptools documentation page:
- https://setuptools.pypa.io/en/latest/userguide/datafiles.html
[^1]: For Python, any directory (with suitable naming) can be imported,
even if it does not contain any `.py` files.
On the other hand, currently there is no concept of package data
directory, all directories are treated like packages.
********************************************************************************
!!
check.warn(importable)
copying pbcore/data/Fluidigm_human_amplicons.fasta -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data
copying pbcore/data/Fluidigm_human_amplicons.fasta.fai -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data
copying pbcore/data/Fluidigm_human_amplicons_tiny.fasta -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data
copying pbcore/data/barcodes-ed65-450.fasta -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data
copying pbcore/data/barcodes-ed65-450.fasta.fai -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data
copying pbcore/data/blasr-output.m4 -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data
copying pbcore/data/blasr-output.m5 -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data
copying pbcore/data/chemistry.xml -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data
copying pbcore/data/empty.aligned_subreads.bam -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data
copying pbcore/data/empty.aligned_subreads.bam.pbi -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data
copying pbcore/data/empty.ccs.bam -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data
copying pbcore/data/empty.ccs.bam.pbi -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data
copying pbcore/data/empty2.bam -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data
copying pbcore/data/empty2.bam.pbi -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data
copying pbcore/data/lambdaNEB.fa -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data
copying pbcore/data/lambdaNEB.fa.fai -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data
copying pbcore/data/m130727_114215_42211_c100569412550000001823090301191423_s1_p0.ccs.bam -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data
copying pbcore/data/m130727_114215_42211_c100569412550000001823090301191423_s1_p0.ccs.bam.bai -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data
copying pbcore/data/m130727_114215_42211_c100569412550000001823090301191423_s1_p0.ccs.bam.pbi -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data
copying pbcore/data/m140905_042212_sidney_c100564852550000001823085912221377_s1_X0.aligned_subreads.bam -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data
copying pbcore/data/m140905_042212_sidney_c100564852550000001823085912221377_s1_X0.aligned_subreads.bam.bai -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data
copying pbcore/data/m140905_042212_sidney_c100564852550000001823085912221377_s1_X0.aligned_subreads.bam.pbi -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data
copying pbcore/data/m140905_042212_sidney_c100564852550000001823085912221377_s1_X0.scraps.bam -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data
copying pbcore/data/m140905_042212_sidney_c100564852550000001823085912221377_s1_X0.scraps.bam.pbi -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data
copying pbcore/data/m140905_042212_sidney_c100564852550000001823085912221377_s1_X0.subreads.bam -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data
copying pbcore/data/m140905_042212_sidney_c100564852550000001823085912221377_s1_X0.subreads.bam.pbi -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data
copying pbcore/data/variants.gff -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data
copying pbcore/data/weird.fa -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data
copying pbcore/data/weird.fa.fai -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data
creating /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/chemistry/resources
copying pbcore/chemistry/resources/mapping.xml -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/chemistry/resources
copying pbcore/data/datasets/CollectionMetadata.xml -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/alignment.dataset.xml -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/barcode.dataset.xml -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/ccsaligned.dataset.xml -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/ccsread.dataset.xml -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/contig.dataset.xml -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/empty_lambda.aligned.bam -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/empty_lambda.aligned.bam.bai -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/empty_lambda.aligned.bam.pbi -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/fofn.fofn -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/lambda.alignmentset.xml -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/lambda.referenceset.xml -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/m140905_042212_sidney_c100564852550000001823085912221377_s1_X0.subreads.fake_bc.bam -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/m140905_042212_sidney_c100564852550000001823085912221377_s1_X0.subreads.fake_bc.bam.bai -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/m140905_042212_sidney_c100564852550000001823085912221377_s1_X0.subreads.fake_bc.bam.pbi -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/m150430_142051_Mon_p1_b25.sts.xml -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/m150616_053259_ethan_c100710482550000001823136404221563_s1_p0.sts.xml -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/pbalchemysim.alignmentset.xml -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/pbalchemysim0.alignmentset.chunk0contigs.xml -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/pbalchemysim0.alignmentset.chunk1contigs.xml -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/pbalchemysim0.alignmentset.xml -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/pbalchemysim0.pbalign.bam -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/pbalchemysim0.pbalign.bam.bai -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/pbalchemysim0.pbalign.bam.pbi -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/pbalchemysim0.reference.fasta -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/pbalchemysim0.reference.fasta.fai -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/pbalchemysim0.referenceset.xml -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/pbalchemysim0.subreads.bam -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/pbalchemysim0.subreads.bam.bai -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/pbalchemysim0.subreads.bam.pbi -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/pbalchemysim0.subreadset.xml -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/pbalchemysim1.alignmentset.xml -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/pbalchemysim1.pbalign.bam -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/pbalchemysim1.pbalign.bam.bai -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/pbalchemysim1.pbalign.bam.pbi -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/pbalchemysim1.subreads.bam -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/pbalchemysim1.subreads.bam.bai -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/pbalchemysim1.subreads.bam.pbi -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/pbalchemysim1.subreadset.xml -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/reference.dataset.xml -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/subread.dataset.xml -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets
copying pbcore/data/datasets/subreadSetWithStats.xml -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets
PYTHONPATH=/build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build /usr/bin/make doc
make[2]: Entering directory '/build/reproducible-path/python-pbcore-2.1.2+dfsg'
sphinx-apidoc -o doc/ pbcore/ && cd doc/ && make html
make[3]: Entering directory '/build/reproducible-path/python-pbcore-2.1.2+dfsg/doc'
sphinx-apidoc -o . -d 4 ../pbcore/
sphinx-build -b html -d _build/doctrees . _build/html
Running Sphinx v8.1.3
loading translations [en]... done
making output directory... done
Converting `source_suffix = '.rst'` to `source_suffix = {'.rst': 'restructuredtext'}`.
building [mo]: targets for 0 po files that are out of date
writing output...
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... [ 55%] pbcore.data.datasets
reading sources... [ 64%] pbcore.io
reading sources... [ 73%] pbcore.io.align
reading sources... [ 82%] pbcore.io.dataset
reading sources... [ 91%] pbcore.model
reading sources... [100%] pbcore.util
/build/reproducible-path/python-pbcore-2.1.2+dfsg/doc/pbcore.rst:7: WARNING: toctree contains reference to nonexisting document 'pbcore.deprecated' [toc.not_readable]
/build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/dataset/DataSetMembers.py:docstring of pbcore.io.dataset.DataSetMembers:47: ERROR: Unexpected indentation. [docutils]
WARNING: autodoc: failed to import module 'Process' from module 'pbcore.util'; the following exception was raised:
No module named 'pbcore.util.Process' [autodoc.import_object]
looking for now-outdated files... none found
pickling environment... done
checking consistency... /build/reproducible-path/python-pbcore-2.1.2+dfsg/doc/modules.rst: WARNING: document isn't included in any toctree
/build/reproducible-path/python-pbcore-2.1.2+dfsg/doc/pbcore.data.datasets.rst: WARNING: document isn't included in any toctree
/build/reproducible-path/python-pbcore-2.1.2+dfsg/doc/pbcore.io.align.rst: WARNING: document isn't included in any toctree
/build/reproducible-path/python-pbcore-2.1.2+dfsg/doc/pbcore.io.dataset.rst: WARNING: document isn't included in any toctree
done
preparing documents... done
copying assets...
copying static files...
Writing evaluated template result to /build/reproducible-path/python-pbcore-2.1.2+dfsg/doc/_build/html/_static/basic.css
Writing evaluated template result to /build/reproducible-path/python-pbcore-2.1.2+dfsg/doc/_build/html/_static/documentation_options.js
Writing evaluated template result to /build/reproducible-path/python-pbcore-2.1.2+dfsg/doc/_build/html/_static/language_data.js
Writing evaluated template result to /build/reproducible-path/python-pbcore-2.1.2+dfsg/doc/_build/html/_static/classic.css
Writing evaluated template result to /build/reproducible-path/python-pbcore-2.1.2+dfsg/doc/_build/html/_static/sidebar.js
copying static files: done
copying extra files...
copying extra files: done
copying assets: 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... [ 55%] pbcore.data.datasets
writing output... [ 64%] pbcore.io
writing output... [ 73%] pbcore.io.align
writing output... [ 82%] pbcore.io.dataset
writing output... [ 91%] 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
dumping search index in English (code: en)... done
dumping object inventory... done
build succeeded, 8 warnings.
The HTML pages are in _build/html.
Build finished. The HTML pages are in _build/html.
make[3]: Leaving directory '/build/reproducible-path/python-pbcore-2.1.2+dfsg/doc'
make[2]: Leaving directory '/build/reproducible-path/python-pbcore-2.1.2+dfsg'
make[1]: Leaving directory '/build/reproducible-path/python-pbcore-2.1.2+dfsg'
debian/rules override_dh_auto_test
make[1]: Entering directory '/build/reproducible-path/python-pbcore-2.1.2+dfsg'
# 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
dh_auto_test
I: pybuild base:311: cd /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build; python3.13 -m pytest tests
============================= test session starts ==============================
platform linux -- Python 3.13.2, pytest-8.3.4, pluggy-1.5.0 -- /usr/bin/python3.13
cachedir: .pytest_cache
rootdir: /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build
configfile: pytest.ini
plugins: typeguard-4.4.2, xdist-3.6.1, cov-5.0.0
created: 24/24 workers
24 workers [140 items]
scheduling tests via LoadScopeScheduling
tests/test_pbdataset_split.py::TestDataSetSplit::test_split
tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testBasicOperations
tests/test_pbcore_io_GffIO.py::TestGff3Record::test_str
[gw7] [ 0%] PASSED tests/test_pbcore_io_GffIO.py::TestGff3Record::test_str
tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::testIteration
tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test__init__
[gw3] [ 1%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test__init__
tests/test_pbindex.py::TestPbIndex::test_pbindex_bam_consistency
tests/test_pbcore_io_AlnFileReaders.py::TestMultipleReadGroups::test_retrieve_read_group_properties
tests/test_pbcore_io_FofnIO.py::test_simple
[gw12] [ 2%] PASSED tests/test_pbcore_io_FofnIO.py::test_simple
tests/test_pbcore_io_FofnIO.py::test_empty_lines
tests/test_pbcore_io_FastaIO.py::TestFastaReader::test_readFasta
tests/test_pbcore_io_AlnFileReaders.py::TestCCSBam::testBasicOperations
[gw13] [ 2%] SKIPPED tests/test_pbcore_io_AlnFileReaders.py::TestCCSBam::testBasicOperations
tests/test_pbcore_io_BlasrIO.py::test_m4
[gw15] [ 3%] PASSED tests/test_pbcore_io_BlasrIO.py::test_m4
tests/test_pbcore_io_FastqIO.py::TestQvConversion::testAsciiFromQvs
[gw18] [ 4%] PASSED tests/test_pbcore_io_FastqIO.py::TestQvConversion::testAsciiFromQvs
tests/test_pbdataset_utils.py::TestDataSetUtils::test_get_dataset_uuid
[gw5] [ 5%] PASSED tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::testIteration
tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::testAccessByName
[gw5] [ 5%] PASSED tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::testAccessByName
tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::testAccessById
tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test__init__
[gw4] [ 6%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test__init__
tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test__str__
[gw4] [ 7%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test__str__
tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_fromString
[gw4] [ 7%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_fromString
tests/test_pbcore_io_AlnFileReaders.py::TestCCSBam::testQStartEndUnavailable
tests/test_pbcore_io_GffIO.py::TestGffReader::test_headers
[gw16] [ 8%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaReader::test_readFasta
tests/test_pbcore_io_FastaIO.py::TestFastaReader::test_dosLineEndingsFasta
[gw16] [ 9%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaReader::test_dosLineEndingsFasta
tests/test_pbcore_io_BlasrIO.py::test_m5
[gw15] [ 10%] PASSED tests/test_pbcore_io_BlasrIO.py::test_m5
tests/test_pbcore_io_FastqIO.py::TestFastqReader::test_readFastq1
[gw19] [ 10%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqReader::test_readFastq1
tests/test_pbcore_io_FastqIO.py::TestFastqReader::test_readFastq2
[gw19] [ 11%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqReader::test_readFastq2
[gw5] [ 12%] PASSED tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::testAccessById
tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::testAccessByPosition
[gw5] [ 12%] PASSED tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::testAccessByPosition
tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::testSlice
[gw5] [ 13%] PASSED tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::testSlice
tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::test_dosLineEndingsFasta
[gw12] [ 14%] PASSED tests/test_pbcore_io_FofnIO.py::test_empty_lines
tests/test_pbcore_io_GffIO.py::TestGffSorting::test_merge_gffs
[gw8] [ 15%] PASSED tests/test_pbcore_io_GffIO.py::TestGffSorting::test_merge_gffs
tests/test_pbcore_io_GffIO.py::TestGffSorting::test_merge_gffs_sorted
[gw8] [ 15%] PASSED tests/test_pbcore_io_GffIO.py::TestGffSorting::test_merge_gffs_sorted
tests/test_pbcore_io_GffIO.py::TestGffSorting::test_sort_gff
[gw8] [ 16%] PASSED tests/test_pbcore_io_GffIO.py::TestGffSorting::test_sort_gff
tests/test_pbcore_io_GffIO.py::TestGffSorting::test_empty_file
tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testBasicOperations
[gw2] [ 17%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testBasicOperations
tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testStrandOrientation
[gw14] [ 17%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestMultipleReadGroups::test_retrieve_read_group_properties
tests/test_pbcore_io_AlnFileReaders.py::TestMultipleReadGroups::test_sample_names
[gw14] [ 18%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestMultipleReadGroups::test_sample_names
tests/test_pbcore_extract_bam_sequence.py::TestCase::test_reverse_complement
tests/test_pbcore_util.py::TestStatistics::test_accuracy_as_phred_qv
[gw23] [ 19%] PASSED tests/test_pbcore_util.py::TestStatistics::test_accuracy_as_phred_qv
tests/test_pbcore_util.py::TestStatistics::test_phred_qv_as_accuracy
[gw23] [ 20%] PASSED tests/test_pbcore_util.py::TestStatistics::test_phred_qv_as_accuracy
[gw20] [ 20%] PASSED tests/test_pbcore_io_GffIO.py::TestGffReader::test_headers
tests/test_pbcore_io_GffIO.py::TestGffReader::test__iter__
[gw20] [ 21%] PASSED tests/test_pbcore_io_GffIO.py::TestGffReader::test__iter__
tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_reverse_complement1
[gw4] [ 22%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_reverse_complement1
tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_reverse_complement2
[gw4] [ 22%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_reverse_complement2
tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_len
[gw4] [ 23%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_len
tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_eq
[gw4] [ 24%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_eq
tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_not_equal
[gw4] [ 25%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_not_equal
tests/test_pbcore_io_AlnFileReaders.py::TestTranscriptBam::test_transcript_set_support
[gw15] [ 25%] SKIPPED tests/test_pbcore_io_AlnFileReaders.py::TestTranscriptBam::test_transcript_set_support
tests/test_pbcore_io_FofnIO.py::test_absolutifying
[gw12] [ 26%] PASSED tests/test_pbcore_io_FofnIO.py::test_absolutifying
tests/test_pbcore_io_VcfIO.py::TestVcfSorting::test_merge_vcfs_sorted
[gw20] [ 27%] PASSED tests/test_pbcore_io_VcfIO.py::TestVcfSorting::test_merge_vcfs_sorted
[gw2] [ 27%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testStrandOrientation
tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testReadName
[gw2] [ 28%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testReadName
tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testAlignedRead
[gw2] [ 29%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testAlignedRead
tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testUnalignedRead
[gw2] [ 30%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testUnalignedRead
tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testAlignedReference
[gw2] [ 30%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testAlignedReference
tests/test_pbcore_io_GffIO.py::TestGff3Record::test_modification
[gw7] [ 31%] PASSED tests/test_pbcore_io_GffIO.py::TestGff3Record::test_modification
tests/test_pbcore_io_GffIO.py::TestGff3Record::test_fromString
[gw7] [ 32%] PASSED tests/test_pbcore_io_GffIO.py::TestGff3Record::test_fromString
tests/test_pbcore_io_GffIO.py::TestGff3Record::test_get
[gw7] [ 32%] PASSED tests/test_pbcore_io_GffIO.py::TestGff3Record::test_get
[gw13] [ 33%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestCCSBam::testQStartEndUnavailable
tests/test_dataset_run_split.py::test
[gw13] [ 34%] SKIPPED tests/test_dataset_run_split.py::test
tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testUnalignedReference
[gw2] [ 35%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testUnalignedReference
tests/test_pbcore_io_AlnFileReaders.py::TestEmptyBam::test_empty_bam_reads_in_range
[gw16] [ 35%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestEmptyBam::test_empty_bam_reads_in_range
tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test__str__
[gw3] [ 36%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test__str__
tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test_fromString
[gw3] [ 37%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test_fromString
tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test_reverse_complement1
[gw3] [ 37%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test_reverse_complement1
tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test_reverse_complement2
[gw3] [ 38%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test_reverse_complement2
tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test_len
[gw3] [ 39%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test_len
tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test_eq
[gw3] [ 40%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test_eq
tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test_not_equal
[gw3] [ 40%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test_not_equal
[gw5] [ 41%] PASSED tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::test_dosLineEndingsFasta
tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testDeletionQV
[gw2] [ 42%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testDeletionQV
[gw8] [ 42%] PASSED tests/test_pbcore_io_GffIO.py::TestGffSorting::test_empty_file
[gw1] [ 43%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testBasicOperations
tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testStrandOrientation
[gw1] [ 44%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testStrandOrientation
tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testReadName
[gw1] [ 45%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testReadName
tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testAlignedRead
[gw1] [ 45%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testAlignedRead
tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testUnalignedRead
[gw1] [ 46%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testUnalignedRead
[gw14] [ 47%] PASSED tests/test_pbcore_extract_bam_sequence.py::TestCase::test_reverse_complement
tests/test_pbcore_io_FastqIO.py::TestQvConversion::testQvsFromAscii
[gw18] [ 47%] PASSED tests/test_pbcore_io_FastqIO.py::TestQvConversion::testQvsFromAscii
tests/test_pbcore_io_AlnFileReaders.py::TestUpdatedChemistryMapping::test_load_updated_mapping
[gw18] [ 48%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestUpdatedChemistryMapping::test_load_updated_mapping
tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::test_readWeirdFastaIndex
[gw5] [ 49%] PASSED tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::test_readWeirdFastaIndex
tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testTranscript
[gw2] [ 50%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testTranscript
tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testClippedAlignments
[gw2] [ 50%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testClippedAlignments
tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testReadsInRange
tests/test_pbcore_io_GffIO.py::TestGffWriter::test_writeHeader
[gw21] [ 51%] PASSED tests/test_pbcore_io_GffIO.py::TestGffWriter::test_writeHeader
tests/test_pbcore_io_GffIO.py::TestGffWriter::test_writeRecord
[gw21] [ 52%] PASSED tests/test_pbcore_io_GffIO.py::TestGffWriter::test_writeRecord
tests/test_pbcore_io_lossless_bam.py::TestCase::test_1
[gw21] [ 52%] SKIPPED tests/test_pbcore_io_lossless_bam.py::TestCase::test_1
tests/test_pbcore_io_FastaIO.py::TestFastaWriter::test_writeFasta1
[gw17] [ 53%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaWriter::test_writeFasta1
tests/test_pbcore_io_FastaIO.py::TestFastaWriter::test_writeFasta2
[gw17] [ 54%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaWriter::test_writeFasta2
tests/test_pbcore_io_AlnFileReaders.py::TestMissingHeaderM5::test_retrieve_read_group_properties
[gw17] [ 55%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestMissingHeaderM5::test_retrieve_read_group_properties
tests/test_pbcore_util_sequences.py::TestReverseComplement::test_reverse
[gw6] [ 55%] PASSED tests/test_pbcore_util_sequences.py::TestReverseComplement::test_reverse
tests/test_pbcore_util_sequences.py::TestReverseComplement::test_complement
[gw6] [ 56%] PASSED tests/test_pbcore_util_sequences.py::TestReverseComplement::test_complement
tests/test_pbcore_util_sequences.py::TestReverseComplement::test_reverseComplement
[gw6] [ 57%] PASSED tests/test_pbcore_util_sequences.py::TestReverseComplement::test_reverseComplement
tests/test_pbcore_util_sequences.py::TestReverseComplement::test_iupac
[gw6] [ 57%] PASSED tests/test_pbcore_util_sequences.py::TestReverseComplement::test_iupac
tests/test_pbcore_util_sequences.py::TestReverseComplement::test_complement_error
[gw6] [ 58%] PASSED tests/test_pbcore_util_sequences.py::TestReverseComplement::test_complement_error
tests/test_pbcore_util_sequences.py::TestReverseComplement::test_reverse_complement_error
[gw6] [ 59%] PASSED tests/test_pbcore_util_sequences.py::TestReverseComplement::test_reverse_complement_error
[gw9] [ 60%] PASSED tests/test_pbdataset_utils.py::TestDataSetUtils::test_get_dataset_uuid
tests/test_pbdataset_utils.py::TestDataSetUtils::test_get_dataset_metatype
[gw9] [ 60%] PASSED tests/test_pbdataset_utils.py::TestDataSetUtils::test_get_dataset_metatype
tests/test_pbdataset_utils.py::TestDataSetUtils::test_dsIdToSuffix
[gw9] [ 61%] PASSED tests/test_pbdataset_utils.py::TestDataSetUtils::test_dsIdToSuffix
tests/test_pbdataset_utils.py::TestDataSetUtils::test_divideKeys_keysToRanges
[gw9] [ 62%] PASSED tests/test_pbdataset_utils.py::TestDataSetUtils::test_divideKeys_keysToRanges
tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testAlignedReference
[gw1] [ 62%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testAlignedReference
tests/test_pbcore_io_unaligned_bam.py::TestUnalignedBam::testInvalidOperations
[gw22] [ 63%] PASSED tests/test_pbcore_io_unaligned_bam.py::TestUnalignedBam::testInvalidOperations
tests/test_pbcore_io_unaligned_bam.py::TestUnalignedBam::testIpd
[gw22] [ 64%] PASSED tests/test_pbcore_io_unaligned_bam.py::TestUnalignedBam::testIpd
[gw11] [ 65%] PASSED tests/test_pbindex.py::TestPbIndex::test_pbindex_bam_consistency
tests/test_pbindex.py::TestPbIndex::test_pbindex_streaming
[gw11] [ 65%] PASSED tests/test_pbindex.py::TestPbIndex::test_pbindex_streaming
tests/test_pbindex.py::TestPbIndex::test_pbindex_streaming_entire
[gw11] [ 66%] PASSED tests/test_pbindex.py::TestPbIndex::test_pbindex_streaming_entire
tests/test_pbindex.py::TestPbIndex::test_pbindex_with_zmw_index
[gw11] [ 67%] PASSED tests/test_pbindex.py::TestPbIndex::test_pbindex_with_zmw_index
[gw0] [ 67%] PASSED tests/test_pbdataset_split.py::TestDataSetSplit::test_split
tests/test_pbcore_io_AlnFileReaders.py::TestBarcodedBam::test_read_lima_demultiplexed_bam
[gw19] [ 68%] SKIPPED tests/test_pbcore_io_AlnFileReaders.py::TestBarcodedBam::test_read_lima_demultiplexed_bam
tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testUnalignedReference
[gw1] [ 69%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testUnalignedReference
tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testDeletionQV
[gw1] [ 70%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testDeletionQV
tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testTranscript
[gw1] [ 70%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testTranscript
tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testClippedAlignments
[gw1] [ 71%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testClippedAlignments
tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testReadsInRange
tests/test_pbcore_io_FastqIO.py::TestFastqWriter::test_writeFastq1
[gw10] [ 72%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqWriter::test_writeFastq1
tests/test_pbcore_io_FastqIO.py::TestFastqWriter::test_writeFastq2
[gw10] [ 72%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqWriter::test_writeFastq2
tests/test_pbcore_io_FastqIO.py::TestFastqWriter::test_writeFastq3
[gw10] [ 73%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqWriter::test_writeFastq3
tests/test_pbdataset_split.py::TestDataSetSplit::test_split_zmws
[gw2] [ 74%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testReadsInRange
tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testReadGroupTable
[gw2] [ 75%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testReadGroupTable
tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testSequencingChemistry
[gw2] [ 75%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testSequencingChemistry
tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testSpecVersion
[gw2] [ 76%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testSpecVersion
tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testReadScore
[gw2] [ 77%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testReadScore
tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::test_sample_name_default
[gw2] [ 77%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::test_sample_name_default
tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::test_library_name_default
[gw1] [ 78%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testReadsInRange
[gw2] [ 79%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::test_library_name_default
[gw0] [ 80%] PASSED tests/test_pbdataset_split.py::TestDataSetSplit::test_split_zmws
tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testReadGroupTable
[gw1] [ 80%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testReadGroupTable
tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testSequencingChemistry
tests/test_pbdataset_split.py::TestDataSetSplit::test_split_zmws_targetsize
[gw1] [ 81%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testSequencingChemistry
tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testMapQV
[gw1] [ 82%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testMapQV
tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testHoleNumbers
[gw1] [ 82%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testHoleNumbers
tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testErrorCounts
[gw1] [ 83%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testErrorCounts
tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testReadsByName
[gw1] [ 84%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testReadsByName
tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::test_empty_bam
[gw1] [ 85%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::test_empty_bam
tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::test_alignment_identity
[gw1] [ 85%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::test_alignment_identity
tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::test_alignment_identity_unindexed
[gw1] [ 86%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::test_alignment_identity_unindexed
[gw0] [ 87%] PASSED tests/test_pbdataset_split.py::TestDataSetSplit::test_split_zmws_targetsize
tests/test_pbdataset_split.py::TestDataSetSplit::test_large_split_zmws
[gw0] [ 87%] SKIPPED tests/test_pbdataset_split.py::TestDataSetSplit::test_large_split_zmws
tests/test_pbdataset_split.py::TestDataSetSplit::test_multi_movie_split_zmws
[gw0] [ 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
[gw0] [ 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
[gw0] [ 90%] SKIPPED tests/test_pbdataset_split.py::TestDataSetSplit::test_multi_movie_split_zmws_existing_filters
tests/test_pbdataset_split.py::TestDataSetSplit::test_movie_split
[gw0] [ 90%] SKIPPED tests/test_pbdataset_split.py::TestDataSetSplit::test_movie_split
tests/test_pbdataset_split.py::TestDataSetSplit::test_split_references
[gw0] [ 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
[gw0] [ 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
[gw0] [ 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
[gw0] [ 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
[gw0] [ 94%] PASSED tests/test_pbdataset_split.py::TestDataSetSplit::test_split_by_contigs_with_split
tests/test_pbdataset_split.py::TestDataSetSplit::test_refWindows
[gw0] [ 95%] PASSED tests/test_pbdataset_split.py::TestDataSetSplit::test_refWindows
tests/test_pbdataset_split.py::TestDataSetSplit::test_huge_zmw_split
[gw0] [ 95%] SKIPPED tests/test_pbdataset_split.py::TestDataSetSplit::test_huge_zmw_split
tests/test_pbdataset_split.py::TestDataSetSplit::test_subreadset_split_metadata_element_name
[gw0] [ 96%] PASSED tests/test_pbdataset_split.py::TestDataSetSplit::test_subreadset_split_metadata_element_name
tests/test_pbdataset_split.py::TestDataSetSplit::test_contigset_split
[gw0] [ 97%] PASSED tests/test_pbdataset_split.py::TestDataSetSplit::test_contigset_split
tests/test_pbdataset_split.py::TestDataSetSplit::test_isBarcoded
[gw0] [ 97%] SKIPPED tests/test_pbdataset_split.py::TestDataSetSplit::test_isBarcoded
tests/test_pbdataset_split.py::TestDataSetSplit::test_barcode_split_cornercases
[gw0] [ 98%] SKIPPED tests/test_pbdataset_split.py::TestDataSetSplit::test_barcode_split_cornercases
tests/test_pbdataset_split.py::TestDataSetSplit::test_barcode_split_maxChunks
[gw0] [ 99%] SKIPPED tests/test_pbdataset_split.py::TestDataSetSplit::test_barcode_split_maxChunks
tests/test_pbdataset_split.py::TestDataSetSplit::test_split_read_groups
[gw0] [100%] SKIPPED tests/test_pbdataset_split.py::TestDataSetSplit::test_split_read_groups
=============================== warnings summary ===============================
tests/test_pbcore_io_FastqIO.py: 11 warnings
/build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/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_io_AlnFileReaders.py: 28 warnings
/build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/align/BamAlignment.py:587: DeprecationWarning: tostring() is deprecated. Use tobytes() instead.
return r.tostring().decode("ascii")
tests/test_pbcore_io_AlnFileReaders.py: 20 warnings
/build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/align/BamAlignment.py:368: DeprecationWarning: tostring() is deprecated. Use tobytes() instead.
return y.tostring().decode("ascii")
tests/test_pbcore_io_AlnFileReaders.py: 3 warnings
tests/test_pbdataset_split.py: 16 warnings
/build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/align/PacBioBamIndex.py:159: DeprecationWarning: Conversion of an array with ndim > 0 to a scalar is deprecated, and will error in future. Ensure you extract a single element from your array before performing this operation. (Deprecated NumPy 1.25.)
ntId = int(peek("u4", 1))
tests/test_pbcore_extract_bam_sequence.py: 1 warning
tests/test_pbcore_io_AlnFileReaders.py: 118 warnings
/build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/align/BamAlignment.py:356: DeprecationWarning: tostring() is deprecated. Use tobytes() instead.
return _gusfieldTrans[uc].tostring().decode("ascii")
tests/test_pbdataset_utils.py: 10 warnings
tests/test_pbdataset_split.py: 249 warnings
/build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/dataset/utils.py:24: DeprecationWarning: datetime.datetime.utcnow() is deprecated and scheduled for removal in a future version. Use timezone-aware objects to represent datetimes in UTC: datetime.datetime.now(datetime.UTC).
time = datetime.datetime.utcnow().strftime("%y%m%d_%H%M%S%f")[:-3]
tests/test_pbdataset_split.py::TestDataSetSplit::test_split
tests/test_pbdataset_split.py::TestDataSetSplit::test_subreadset_split_metadata_element_name
/build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/dataset/utils.py:30: DeprecationWarning: datetime.datetime.utcnow() is deprecated and scheduled for removal in a future version. Use timezone-aware objects to represent datetimes in UTC: datetime.datetime.now(datetime.UTC).
return datetime.datetime.utcnow().strftime("%Y-%m-%dT%H:%M:%S%f")[:-6]
tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testReadsByName
tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testReadsByName
tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testReadsByName
/build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/align/_AlignmentMixin.py:70: DeprecationWarning: `in1d` is deprecated. Use `np.isin` instead.
rns = np.flatnonzero(np.in1d(self.qId, rgs) &
-- Docs: https://docs.pytest.org/en/stable/how-to/capture-warnings.html
- generated xml file: /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/nosetests.xml -
---------- coverage: platform linux, python 3.13.2-final-0 -----------
Coverage XML written to file coverage.xml
============================= slowest 20 durations =============================
0.30s call tests/test_pbdataset_split.py::TestDataSetSplit::test_split_by_contigs_with_split_and_maxChunks
0.27s call tests/test_pbdataset_split.py::TestDataSetSplit::test_split_by_contigs_with_split
0.22s call tests/test_pbdataset_split.py::TestDataSetSplit::test_split_zmws_targetsize
0.18s call tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testReadsInRange
0.15s call tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testReadsInRange
0.14s call tests/test_pbdataset_split.py::TestDataSetSplit::test_split_zmws
0.11s call tests/test_pbdataset_split.py::TestDataSetSplit::test_split
0.11s call tests/test_pbdataset_split.py::TestDataSetSplit::test_contigset_split
0.07s call tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::test_alignment_identity_unindexed
0.06s call tests/test_pbindex.py::TestPbIndex::test_pbindex_bam_consistency
0.03s setup tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testBasicOperations
0.03s call tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::test_alignment_identity
0.03s setup tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testBasicOperations
0.03s call tests/test_pbdataset_split.py::TestDataSetSplit::test_refWindows
0.03s call tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::test_dosLineEndingsFasta
0.02s call tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testHoleNumbers
0.02s call tests/test_pbdataset_split.py::TestDataSetSplit::test_subreadset_split_metadata_element_name
0.02s call tests/test_pbdataset_utils.py::TestDataSetUtils::test_get_dataset_uuid
0.01s call tests/test_pbcore_io_AlnFileReaders.py::TestMissingHeaderM5::test_retrieve_read_group_properties
0.01s setup tests/test_pbcore_extract_bam_sequence.py::TestCase::test_reverse_complement
================ 122 passed, 18 skipped, 461 warnings in 4.56s =================
I: pybuild pybuild:334: rm -rfv /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/coverage.xml /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/nosetests.xml
removed '/build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/coverage.xml'
removed '/build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/nosetests.xml'
# 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/reproducible-path/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:311: /usr/bin/python3 setup.py install --root /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore
/usr/lib/python3/dist-packages/setuptools/dist.py:493: SetuptoolsDeprecationWarning: Invalid dash-separated options
!!
********************************************************************************
Usage of dash-separated 'description-file' will not be supported in future
versions. Please use the underscore name 'description_file' instead.
This deprecation is overdue, please update your project and remove deprecated
calls to avoid build errors in the future.
See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details.
********************************************************************************
!!
opt = self.warn_dash_deprecation(opt, section)
/usr/lib/python3/dist-packages/setuptools/_distutils/dist.py:270: UserWarning: Unknown distribution option: 'tests_require'
warnings.warn(msg)
running install
/usr/lib/python3/dist-packages/setuptools/_distutils/cmd.py:79: SetuptoolsDeprecationWarning: setup.py install is deprecated.
!!
********************************************************************************
Please avoid running ``setup.py`` directly.
Instead, use pypa/build, pypa/installer or other
standards-based tools.
See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details.
********************************************************************************
!!
self.initialize_options()
running build
running build_py
running 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:212: _Warning: Package 'pbcore.chemistry.resources' is absent from the `packages` configuration.
!!
********************************************************************************
############################
# Package would be ignored #
############################
Python recognizes 'pbcore.chemistry.resources' as an importable package[^1],
but it is absent from setuptools' `packages` configuration.
This leads to an ambiguous overall configuration. If you want to distribute this
package, please make sure that 'pbcore.chemistry.resources' is explicitly added
to the `packages` configuration field.
Alternatively, you can also rely on setuptools' discovery methods
(for example by using `find_namespace_packages(...)`/`find_namespace:`
instead of `find_packages(...)`/`find:`).
You can read more about "package discovery" on setuptools documentation page:
- https://setuptools.pypa.io/en/latest/userguide/package_discovery.html
If you don't want 'pbcore.chemistry.resources' to be distributed and are
already explicitly excluding 'pbcore.chemistry.resources' via
`find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
you can try to use `exclude_package_data`, or `include-package-data=False` in
combination with a more fine grained `package-data` configuration.
You can read more about "package data files" on setuptools documentation page:
- https://setuptools.pypa.io/en/latest/userguide/datafiles.html
[^1]: For Python, any directory (with suitable naming) can be imported,
even if it does not contain any `.py` files.
On the other hand, currently there is no concept of package data
directory, all directories are treated like packages.
********************************************************************************
!!
check.warn(importable)
running install_lib
creating /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages
creating /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/.pytest_cache
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/.pytest_cache/.gitignore -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/.pytest_cache
creating /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/.pytest_cache/v
creating /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/.pytest_cache/v/cache
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/.pytest_cache/v/cache/stepwise -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/.pytest_cache/v/cache
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/.pytest_cache/v/cache/nodeids -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/.pytest_cache/v/cache
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/.pytest_cache/CACHEDIR.TAG -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/.pytest_cache
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/.pytest_cache/README.md -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/.pytest_cache
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/.coverage -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages
creating /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore
creating /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/util
creating /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/util/__pycache__
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/util/__pycache__/statistics.cpython-313.pyc -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/util/__pycache__
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/util/__pycache__/decorators.cpython-313.pyc -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/util/__pycache__
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/util/__pycache__/ToolRunner.cpython-313.pyc -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/util/__pycache__
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/util/__pycache__/__init__.cpython-313.pyc -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/util/__pycache__
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/util/statistics.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/util
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/util/__init__.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/util
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/util/decorators.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/util
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/util/ToolRunner.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/util
creating /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/blasr-output.m4 -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/chemistry.xml -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/variants.gff -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/empty2.bam.pbi -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/barcodes-ed65-450.fasta -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/lambdaNEB.fa -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/m130727_114215_42211_c100569412550000001823090301191423_s1_p0.ccs.bam.bai -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/empty.aligned_subreads.bam -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/weird.fa -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/m140905_042212_sidney_c100564852550000001823085912221377_s1_X0.scraps.bam.pbi -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data
creating /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data/__pycache__
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/__pycache__/__init__.cpython-313.pyc -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data/__pycache__
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/m130727_114215_42211_c100569412550000001823090301191423_s1_p0.ccs.bam -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/m140905_042212_sidney_c100564852550000001823085912221377_s1_X0.scraps.bam -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/m140905_042212_sidney_c100564852550000001823085912221377_s1_X0.aligned_subreads.bam.pbi -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/lambdaNEB.fa.fai -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data
creating /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data/datasets
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets/pbalchemysim0.pbalign.bam -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data/datasets
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets/pbalchemysim1.subreads.bam.pbi -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data/datasets
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets/subread.dataset.xml -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data/datasets
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets/subreadSetWithStats.xml -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data/datasets
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets/pbalchemysim1.pbalign.bam.pbi -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data/datasets
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets/m150616_053259_ethan_c100710482550000001823136404221563_s1_p0.sts.xml -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data/datasets
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets/pbalchemysim0.reference.fasta -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data/datasets
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets/contig.dataset.xml -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data/datasets
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets/pbalchemysim0.reference.fasta.fai -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data/datasets
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets/pbalchemysim0.subreadset.xml -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data/datasets
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets/pbalchemysim0.pbalign.bam.bai -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data/datasets
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets/lambda.referenceset.xml -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data/datasets
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets/empty_lambda.aligned.bam.pbi -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data/datasets
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets/m140905_042212_sidney_c100564852550000001823085912221377_s1_X0.subreads.fake_bc.bam -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data/datasets
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets/CollectionMetadata.xml -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data/datasets
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets/pbalchemysim0.referenceset.xml -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data/datasets
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets/ccsread.dataset.xml -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data/datasets
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets/pbalchemysim0.pbalign.bam.pbi -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data/datasets
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets/m140905_042212_sidney_c100564852550000001823085912221377_s1_X0.subreads.fake_bc.bam.bai -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data/datasets
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets/pbalchemysim1.subreadset.xml -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data/datasets
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets/pbalchemysim0.subreads.bam.bai -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data/datasets
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets/reference.dataset.xml -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data/datasets
creating /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data/datasets/__pycache__
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets/__pycache__/__init__.cpython-313.pyc -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data/datasets/__pycache__
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets/pbalchemysim1.subreads.bam -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data/datasets
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets/pbalchemysim1.pbalign.bam.bai -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data/datasets
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets/m140905_042212_sidney_c100564852550000001823085912221377_s1_X0.subreads.fake_bc.bam.pbi -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data/datasets
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets/pbalchemysim0.alignmentset.xml -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data/datasets
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets/empty_lambda.aligned.bam.bai -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data/datasets
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets/fofn.fofn -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data/datasets
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets/ccsaligned.dataset.xml -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data/datasets
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets/pbalchemysim0.alignmentset.chunk1contigs.xml -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data/datasets
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets/empty_lambda.aligned.bam -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data/datasets
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets/pbalchemysim0.alignmentset.chunk0contigs.xml -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data/datasets
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets/pbalchemysim1.pbalign.bam -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data/datasets
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets/pbalchemysim1.alignmentset.xml -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data/datasets
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets/pbalchemysim0.subreads.bam -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data/datasets
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets/pbalchemysim0.subreads.bam.pbi -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data/datasets
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets/__init__.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data/datasets
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets/pbalchemysim1.subreads.bam.bai -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data/datasets
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets/lambda.alignmentset.xml -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data/datasets
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets/m150430_142051_Mon_p1_b25.sts.xml -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data/datasets
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets/barcode.dataset.xml -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data/datasets
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets/pbalchemysim.alignmentset.xml -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data/datasets
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/datasets/alignment.dataset.xml -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data/datasets
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/empty.ccs.bam.pbi -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/barcodes-ed65-450.fasta.fai -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/empty.ccs.bam -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/m130727_114215_42211_c100569412550000001823090301191423_s1_p0.ccs.bam.pbi -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/empty.aligned_subreads.bam.pbi -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/Fluidigm_human_amplicons.fasta.fai -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/m140905_042212_sidney_c100564852550000001823085912221377_s1_X0.subreads.bam.pbi -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/Fluidigm_human_amplicons_tiny.fasta -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/__init__.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/m140905_042212_sidney_c100564852550000001823085912221377_s1_X0.aligned_subreads.bam.bai -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/blasr-output.m5 -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/weird.fa.fai -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/m140905_042212_sidney_c100564852550000001823085912221377_s1_X0.aligned_subreads.bam -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/Fluidigm_human_amplicons.fasta -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/empty2.bam -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/data/m140905_042212_sidney_c100564852550000001823085912221377_s1_X0.subreads.bam -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data
creating /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/FofnIO.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io
creating /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io/dataset
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/dataset/DataSetMembers.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io/dataset
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/dataset/DataSetIO.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io/dataset
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/dataset/run_split.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io/dataset
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/dataset/DataSetMetaTypes.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io/dataset
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/dataset/DataSetErrors.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io/dataset
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/dataset/utils.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io/dataset
creating /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io/dataset/__pycache__
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/dataset/__pycache__/DataSetMembers.cpython-313.pyc -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io/dataset/__pycache__
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/dataset/__pycache__/DataSetIO.cpython-313.pyc -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io/dataset/__pycache__
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/dataset/__pycache__/DataSetWriter.cpython-313.pyc -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io/dataset/__pycache__
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/dataset/__pycache__/DataSetErrors.cpython-313.pyc -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io/dataset/__pycache__
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/dataset/__pycache__/DataSetMetaTypes.cpython-313.pyc -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io/dataset/__pycache__
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/dataset/__pycache__/run_split.cpython-313.pyc -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io/dataset/__pycache__
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/dataset/__pycache__/DataSetValidator.cpython-313.pyc -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io/dataset/__pycache__
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/dataset/__pycache__/__init__.cpython-313.pyc -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io/dataset/__pycache__
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/dataset/__pycache__/DataSetUtils.cpython-313.pyc -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io/dataset/__pycache__
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/dataset/__pycache__/DataSetReader.cpython-313.pyc -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io/dataset/__pycache__
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/dataset/__pycache__/utils.cpython-313.pyc -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io/dataset/__pycache__
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/dataset/DataSetUtils.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io/dataset
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/dataset/DataSetWriter.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io/dataset
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/dataset/DataSetValidator.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io/dataset
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/dataset/__init__.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io/dataset
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/dataset/DataSetReader.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io/dataset
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/FastqIO.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/GffIO.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io
creating /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io/__pycache__
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/__pycache__/base.cpython-313.pyc -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io/__pycache__
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/__pycache__/GffIO.cpython-313.pyc -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io/__pycache__
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/__pycache__/FastqIO.cpython-313.pyc -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io/__pycache__
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/__pycache__/_utils.cpython-313.pyc -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io/__pycache__
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/__pycache__/FastaIO.cpython-313.pyc -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io/__pycache__
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/__pycache__/opener.cpython-313.pyc -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io/__pycache__
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/__pycache__/VcfIO.cpython-313.pyc -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io/__pycache__
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/__pycache__/FofnIO.cpython-313.pyc -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io/__pycache__
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/__pycache__/__init__.cpython-313.pyc -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io/__pycache__
creating /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io/align
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/align/BlasrIO.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io/align
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/align/BamIO.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io/align
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/align/PacBioBamIndex.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io/align
creating /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io/align/__pycache__
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/align/__pycache__/BamIO.cpython-313.pyc -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io/align/__pycache__
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/align/__pycache__/BlasrIO.cpython-313.pyc -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io/align/__pycache__
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/align/__pycache__/_AlignmentMixin.cpython-313.pyc -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io/align/__pycache__
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/align/__pycache__/PacBioBamIndex.cpython-313.pyc -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io/align/__pycache__
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/align/__pycache__/__init__.cpython-313.pyc -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io/align/__pycache__
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/align/__pycache__/BamAlignment.cpython-313.pyc -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io/align/__pycache__
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/align/__pycache__/_BamSupport.cpython-313.pyc -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io/align/__pycache__
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/align/BamAlignment.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io/align
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/align/_AlignmentMixin.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io/align
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/align/__init__.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io/align
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/align/_BamSupport.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io/align
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/base.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/FastaIO.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/opener.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/VcfIO.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/__init__.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/io/_utils.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io
creating /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/__pycache__
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/__pycache__/sequence.cpython-313.pyc -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/__pycache__
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/__pycache__/__init__.cpython-313.pyc -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/__pycache__
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/sequence.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore
creating /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/chemistry
creating /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/chemistry/__pycache__
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/chemistry/__pycache__/chemistry.cpython-313.pyc -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/chemistry/__pycache__
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/chemistry/__pycache__/__init__.cpython-313.pyc -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/chemistry/__pycache__
creating /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/chemistry/resources
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/chemistry/resources/mapping.xml -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/chemistry/resources
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/chemistry/chemistry.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/chemistry
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/chemistry/__init__.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/chemistry
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/__init__.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore
creating /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/model
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/model/baseRegions.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/model
copying /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.13_pbcore/build/pbcore/model/__init__.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/model
byte-compiling /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/util/statistics.py to statistics.cpython-313.pyc
byte-compiling /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/util/__init__.py to __init__.cpython-313.pyc
byte-compiling /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/util/decorators.py to decorators.cpython-313.pyc
byte-compiling /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/util/ToolRunner.py to ToolRunner.cpython-313.pyc
byte-compiling /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data/datasets/__init__.py to __init__.cpython-313.pyc
byte-compiling /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/data/__init__.py to __init__.cpython-313.pyc
byte-compiling /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io/FofnIO.py to FofnIO.cpython-313.pyc
byte-compiling /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io/dataset/DataSetMembers.py to DataSetMembers.cpython-313.pyc
byte-compiling /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io/dataset/DataSetIO.py to DataSetIO.cpython-313.pyc
byte-compiling /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io/dataset/run_split.py to run_split.cpython-313.pyc
byte-compiling /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io/dataset/DataSetMetaTypes.py to DataSetMetaTypes.cpython-313.pyc
byte-compiling /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io/dataset/DataSetErrors.py to DataSetErrors.cpython-313.pyc
byte-compiling /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io/dataset/utils.py to utils.cpython-313.pyc
byte-compiling /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io/dataset/DataSetUtils.py to DataSetUtils.cpython-313.pyc
byte-compiling /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io/dataset/DataSetWriter.py to DataSetWriter.cpython-313.pyc
byte-compiling /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io/dataset/DataSetValidator.py to DataSetValidator.cpython-313.pyc
byte-compiling /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io/dataset/__init__.py to __init__.cpython-313.pyc
byte-compiling /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io/dataset/DataSetReader.py to DataSetReader.cpython-313.pyc
byte-compiling /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io/FastqIO.py to FastqIO.cpython-313.pyc
byte-compiling /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io/GffIO.py to GffIO.cpython-313.pyc
byte-compiling /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io/align/BlasrIO.py to BlasrIO.cpython-313.pyc
byte-compiling /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io/align/BamIO.py to BamIO.cpython-313.pyc
byte-compiling /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io/align/PacBioBamIndex.py to PacBioBamIndex.cpython-313.pyc
byte-compiling /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io/align/BamAlignment.py to BamAlignment.cpython-313.pyc
byte-compiling /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io/align/_AlignmentMixin.py to _AlignmentMixin.cpython-313.pyc
byte-compiling /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io/align/__init__.py to __init__.cpython-313.pyc
byte-compiling /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io/align/_BamSupport.py to _BamSupport.cpython-313.pyc
byte-compiling /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io/base.py to base.cpython-313.pyc
byte-compiling /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io/FastaIO.py to FastaIO.cpython-313.pyc
byte-compiling /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io/opener.py to opener.cpython-313.pyc
byte-compiling /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io/VcfIO.py to VcfIO.cpython-313.pyc
byte-compiling /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io/__init__.py to __init__.cpython-313.pyc
byte-compiling /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/io/_utils.py to _utils.cpython-313.pyc
byte-compiling /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/sequence.py to sequence.cpython-313.pyc
byte-compiling /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/chemistry/chemistry.py to chemistry.cpython-313.pyc
byte-compiling /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/chemistry/__init__.py to __init__.cpython-313.pyc
byte-compiling /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/__init__.py to __init__.cpython-313.pyc
byte-compiling /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/model/baseRegions.py to baseRegions.cpython-313.pyc
byte-compiling /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore/model/__init__.py to __init__.cpython-313.pyc
running install_egg_info
Copying pbcore.egg-info to /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3.13/dist-packages/pbcore-2.2.0.egg-info
Skipping SOURCES.txt
running install_scripts
Installing .open script to /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/bin
I: pybuild pybuild:334: chmod -x /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore//usr/lib/python3.13/dist-packages/pbcore/data/datasets/*.xml
debian/rules override_dh_install
make[1]: Entering directory '/build/reproducible-path/python-pbcore-2.1.2+dfsg'
dh_install
mv /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/bin/.open /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/bin/pbopen
rmdir /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python-pbcore-doc/usr/share/doc/python3-pbcore/html/_images/
make[1]: Leaving directory '/build/reproducible-path/python-pbcore-2.1.2+dfsg'
debian/rules override_dh_installdocs
make[1]: Entering directory '/build/reproducible-path/python-pbcore-2.1.2+dfsg'
dh_installdocs -X _source
make[1]: Leaving directory '/build/reproducible-path/python-pbcore-2.1.2+dfsg'
dh_sphinxdoc -O--buildsystem=pybuild
debian/rules override_dh_installchangelogs
make[1]: Entering directory '/build/reproducible-path/python-pbcore-2.1.2+dfsg'
dh_installchangelogs CHANGELOG.org
make[1]: Leaving directory '/build/reproducible-path/python-pbcore-2.1.2+dfsg'
dh_installman -O--buildsystem=pybuild
dh_python3 -O--buildsystem=pybuild
debian/rules execute_after_dh_python3
make[1]: Entering directory '/build/reproducible-path/python-pbcore-2.1.2+dfsg'
find /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib/python3* -type d -name dist-packages -empty | xargs rm -rf
find /build/reproducible-path/python-pbcore-2.1.2+dfsg/debian/python3-pbcore/usr/lib -type d -name "python3*" -empty | xargs rm -rf
make[1]: Leaving directory '/build/reproducible-path/python-pbcore-2.1.2+dfsg'
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: package python-pbcore-doc: substitution variable ${sphinxdoc:Built-Using} unused, but is defined
dh_md5sums -O--buildsystem=pybuild
dh_builddeb -O--buildsystem=pybuild
dpkg-deb: building package 'python3-pbcore' in '../python3-pbcore_2.1.2+dfsg-11_all.deb'.
dpkg-deb: building package 'python-pbcore-doc' in '../python-pbcore-doc_2.1.2+dfsg-11_all.deb'.
dpkg-genbuildinfo --build=binary -O../python-pbcore_2.1.2+dfsg-11_i386.buildinfo
dpkg-genchanges --build=binary -O../python-pbcore_2.1.2+dfsg-11_i386.changes
dpkg-genchanges: info: binary-only upload (no source code included)
dpkg-source --after-build .
dpkg-buildpackage: info: binary-only upload (no source included)
dpkg-genchanges: info: 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/458 and its subdirectories
I: Current time: Wed Apr 8 08:45:27 -12 2026
I: pbuilder-time-stamp: 1775681127